#carpentries

2022-12-12

Maria Doyle (09:12:45): > @Maria Doyle has joined the channel

Maria Doyle (09:12:45): > set the channel description: A channel for the trainees and trainees in the Bioconductor Carpentries training program

Laurent Gatto (09:13:21): > @Laurent Gatto has joined the channel

Charlotte Soneson (09:13:21): > @Charlotte Soneson has joined the channel

Almut (09:21:52): > @Almut has joined the channel

2022-12-13

Fabricio Almeida-Silva (06:28:30): > @Fabricio Almeida-Silva has joined the channel

Anand Ruban Agarvas (06:28:30): > @Anand Ruban Agarvas has joined the channel

Leo Lahti (06:28:30): > @Leo Lahti has joined the channel

ChiaSin (06:28:30): > @ChiaSin has joined the channel

Charlotte Hutchings (06:28:30): > @Charlotte Hutchings has joined the channel

David Shih (06:28:31): > @David Shih has joined the channel

rodrigo arcoverde (06:28:31): > @rodrigo arcoverde has joined the channel

Javier Carpinteyro Ponce (06:28:31): > @Javier Carpinteyro Ponce has joined the channel

Zuguang Gu (06:28:31): > @Zuguang Gu has joined the channel

Givanna Putri (06:28:31): > @Givanna Putri has joined the channel

Olly Crook (06:30:16): > @Olly Crook has joined the channel

Sehyun Oh (06:30:56): > @Sehyun Oh has joined the channel

Umar Ahmad (06:31:41): > @Umar Ahmad has joined the channel

Maria Doyle (10:52:56): > set the channel description: A channel for the trainees and trainers in the Bioconductor Carpentries training program

Maria Doyle (11:00:45): > * Welcome! We’ve created this#carpentries**** channel ****to make it easier to have Carpentries-related information in one place. We will put information here for the instructor trainees and feel free to use it to discuss any questions you have with us and each other. > > * Those of you who have completed the Carpentries instructor training workshop - Congrats! > > * For the post-workshopcheckout tasks, please try to make a PR against one of the 3Bioconductor lessons. If you need help with that please feel free to ask us. > > * We add you to thebioconductor-teaching Google groupso you can get the notifications about the monthly meetings (if you haven’t been added you can sign up herehttps://groups.google.com/g/bioconductor-teaching/). The meeting minutes are on the page in the Bioconductor lessons link above. Please try to take part in at least one of these monthly bioc-teaching discussions. > If you’ve any questions please do feel free to ask us. We look forward to interacting with you! > > Maria (on behalf of Teaching Committee)

2022-12-15

Mercilena Benjamin (09:37:50): > @Mercilena Benjamin has joined the channel

2023-01-08

Pageneck Chikondowa (05:33:36): > @Pageneck Chikondowa has joined the channel

2023-01-16

Marie HIDJO (10:50:02): > @Marie HIDJO has joined the channel

2023-01-17

Zedias Chikwambi (05:57:49): > @Zedias Chikwambi has joined the channel

Zedias Chikwambi (05:58:48): > Thank you Maria.

Pageneck Chikondowa (11:39:02): > Hi everyone My name is Pageneck Chikondowa and have been recently selected to be trained to be a carpentry instructor. I am very grateful to be here.

2023-01-23

Fabricio Almeida-Silva (09:59:45): > Hello, everyone. I’ve completed all my checkout steps today, which means I will soon be a Carpentries-certified instructor (just waiting for the certificate to make it official)!:tada:Once again, I’d like to thank Bioconductor for the scholarship, and I look forward to teaching and contributing to Bioc material to expand our community.:bioc-load:

Maria Doyle (10:10:11) (in thread): > Well done Fabricio!

2023-01-24

Umar Ahmad (04:01:58) (in thread): > Congratulations@Fabricio Almeida-Silva.

Maria Doyle (10:17:11): > <!channel>, please let us know here when you complete the instructor training workshop, any of the checkout tasks, or get certified so we can congratulate you:simple_smile:

2023-02-03

Maria Doyle (08:31:26): > <!channel>see opportunity below if any of you would like to give input on training recommendations (and get a $75 gift card:slightly_smiling_face:) - Attachment: Attachment > Re-posted from the Life Science Trainers slack: > We will have a focus group(s) on the Bicycle Principles this month (https://www.bikeprinciples.org). Please complete this poll by February 8th to confirm your interest and ability to attend. We will need at least 3-4 people for any given session to be viable (bringing or forwarding to a friend also involved in training is encouraged!); we are especially interested in reaching trainers in Asia, Latin America, and Africa. We will also have a thank you for your time. > https://doodle.com/meeting/participate/id/az6l3pya > > These focus groups will be held in English on Zoom (approximately 1.5 hours and would be conducted as described below. Attendees should be significantly involved in delivering training workshops to folks in the life and health sciences (i.e., not just undergraduate educators). > > Protocol > > 1. Before the focus group attendees look the Bicycle Principles website (https://www.bikeprinciples.org/), especially the video there which has helpful background (https://youtu.be/18dub7jGeQ8). > 2. Attendees browse the recommendations (at least the titles and summaries); we would not expect anyone to read through all the material. > 3. At the focus group (held based on participant time zones) we would vote on 3 recommendations to cover in a moderated discussion (a few open-ended questions). > 4. For participation, we can provide an online/digital gift card as a thank you (valued at about US $75).

2023-02-04

Leo Lahti (05:29:05): > Hello, everyone. I just received my Carpentries-certified instructor confirmation! > > Many thanks for Bioconductor for this opportunity, I am look forward to teach and contribute to Bioc materials - the basics as well as more specific topics: microbiome & multi-assay data integration.:bioc-load:

Umar Ahmad (07:21:30) (in thread): > Congratulations@Leo Lahti

2023-02-06

Doug Joubert (18:40:09): > @Doug Joubert has joined the channel

2023-02-13

Jenny Drnevich (09:48:39): > @Jenny Drnevich has joined the channel

Maria Doyle (11:41:47): > This post is to give you a couple of quick updates and actions. > > But first, congratulations to our newly certified instructors - Fabricio Almeida-Silva (@Fabricio Almeida-Silva), Leo Lahti (@Leo Lahti) and Charlotte Hutchings (@Charlotte Hutchings)! For the rest of you, please let us know when you get certified so we can congratulate you too:blush:And if you post about it on Twitter let us know as we can retweet from Bioconductor. > 1. Blog post. > We’ve written a post to let the community know about our year 1 selected applicants, which will be published on the Bioconductor blog. > Year 1 applicants: please check your name and affiliation are correctin the draft hereand suggest any edits before nextWednesday February 22nd2. Bioc-rnaseq lesson hackathon > We will be having a hackathon to develop thebioc-rnaseq lesson. We’ll have a planning meeting onMonday February 27th 3-5pm CET. Meeting linkhttps://meet.jit.si/BioconductorTeachingPlease join the meeting if you’d like to teach this lesson in the future and/or if you’re interested in contributing to it. - Attachment (mblue9.github.io): Bioconductor community blog - Bioconductor Carpentries instructors Year 1 > An update on the Bioconductor Carpentries global training program - applicants selected for year 1 - Attachment (meet.jit.si): Jitsi Meet > Join a WebRTC video conference powered by the Jitsi Videobridge

2023-02-27

Maria Doyle (05:50:47): > Blog post above has been posted,tweeted, andtooted - Attachment: Attachment > :writing_hand: New blog post - An update on the Bioconductor Carpentries global training program - applicants selected for Year 1 :tada: :mortar_board: > > https://bioconductor.github.io/biocblog/posts/2023-02-24-carpentries-update/

2023-02-28

Almut (02:34:17): > Hi everyone, I also completed the instructor checkout and got certified now:tada:. Thanks a lot to Bioconductor and the teaching community for this opportunity. I’m looking forward to teach and get involved:slightly_smiling_face:!

ChiaSin (11:36:26): > Hello, everyone. I’ve also completed all the checkout steps today - waiting to get the certificate and further instructions:partying_face:! I want to thank Bioconductor for the opportunity and looking forward to contribute in the future:smiley:

Maria Doyle (11:42:34): > Well done Almut and ChiaSin!:clap::clap:

2023-03-05

Umar Ahmad (05:16:35) (in thread): > Congratulations

Umar Ahmad (05:16:42) (in thread): > Congratulations

2023-03-06

Sehyun Oh (18:59:14): > Hi everyone, I just received the confirmation that I become a certified Carpentries Instructor.:raised_hands:Thanks a lot to Bioconductor for the opportunity. Looking forward to contributing to Carpentries teaching activities. :)

2023-03-24

Zuguang Gu (09:33:46): > Today I also got the certificate of being a Carpentries instructor. lol! Thanks for this opportunity!

2023-04-03

rodrigo arcoverde (03:47:23): > Little late but I also got certified now! Thanks for this! Can’t wait to start teaching!

2023-05-04

Maria Doyle (10:24:42): > We would appreciate your support in spreading the word about the BioC2023 pre-conference Carpentries RNA-seq workshop. Please consider sharing the following text and posts with your networks to help us reach a wider audience. Thank you for your help in making this workshop a success! > ———- > Are you ready to dive into the world of RNA-seq data analysis and elevate your research to new heights? Join ourBioC2023 pre-conference workshopin Boston, Jul 31-Aug 1, on RNA-seq analysis with Bioconductor and master the essential tools and techniques to make sense of your gene expression data! > > In this hands-on workshop, you will: > * Learn from leading experts in the field of bioinformatics and genomics > * Acquire a solid understanding of the RNA-seq analysis pipeline using Bioconductor’s state-of-the-art tools > * Gain insights into best practices for processing and analyzing RNA-seq data > * Explore a variety of methods for identifying differentially expressed genes, pathway analysis, and functional enrichment > * Develop the skills to interpret and visualize your results effectively > * Engage in interactive sessions and group discussions to address your specific questions and challenges > * Network with fellow researchers, bioinformaticians, and industry professionals > Whether you’re a graduate student, a bioinformatics analyst, or a researcher looking to expand your expertise in RNA-seq data analysis, this workshop is designed for you. Prior experience with R programming is required, but all levels of RNA-seq expertise are welcome. > > Don’t miss this fantastic opportunity to enhance your skills and stay at the forefront of cutting-edge genomics research. Spaces are limited, soapply before May 31 to secure your spotand unlock the full potential of your RNA-seq data with Bioconductor! > ———- > Twitterhttps://twitter.com/Bioconductor/status/1654097829420302337Mastodonhttps://genomic.social/@bioconductor/110310382788316790

2023-05-07

Givanna Putri (22:29:53): > Hi everyone, I just received a confirmation email for my carpentries instructor certification! Thank you everyone for the opportunity! I look forward to contributing towards teaching and maintaining bioc carpentries modules!:party_parrot:

2023-06-09

Aedin Culhane (17:25:10): > @Aedin Culhane has joined the channel

2023-07-11

Jenny Drnevich (09:45:46): > @Laurent Gatto@Charlotte Soneson@Maria Doyleduring the Galaxy Smorgasbord, did you have any trouble with people trying to create an RStudio Project? I am running through the bioc-intro workshop on the platform, and I can create a new project, but it doesn’t seem to automatically change the working directory to it the way it does on a regular computer. Any other issues with using the Galaxy interface?

Laurent Gatto (10:21:31): > I can’t remember any such problem.

Jenny Drnevich (10:43:43): > Other than this weird thing, the smorgasbord instance seems ample enough if we need to use it as a last-minute backup for any bioc-rnaseq workshop participant who might need it (e.g., doesn’t have RStudio installed and doesn’t have admin privileges). It can install any packages needed and we can download data files from the internet.@Alex Mahmoud- any problem with us using the smorgasbord instance instead of making a new one to go into the BioC2023 event? It would have very few users, if any.

Alex Mahmoud (10:43:47): > @Alex Mahmoud has joined the channel

Maria Doyle (15:20:08): > Ah Jenny I had that issue too but we (@Alex Mahmoudand me) didn’t know how to change it.

Alex Mahmoud (15:22:31): > My best guess is that it might be due to having the startup script programmatically set a working directory, can look more into it. And no issue with using the platform, lmk if you’d want me to add a separate section or anything like that

2023-08-04

Ray Su (10:49:57): > @Ray Su has joined the channel

2023-09-15

Leo Lahti (04:54:00): > @Leo Lahti has joined the channel

2023-12-21

Maria Doyle (06:46:45): > https://genomic.social/@bioconductor/111614291273826845 - Attachment (genomic.social): Bioconductor (@bioconductor@genomic.social) > Attached: 1 image > > :mega: Join our Collaboration Session with @thecarpentries@hachyderm.io on December 29th from 4-5pm PST. > > We will showcase how to translate Bioconductor-Carpentries teaching materials using Crowdin, with machine translation support from DeepL, Google, and ChatGPT APIs. > > Participation details can be found in the community calendar at the bottom of https://carpentries.org/community/ > > #Bioconductor #TheCarpentries #Translation

2024-03-10

Cherishma Subhasa (19:57:07): > @Cherishma Subhasa has joined the channel

2024-03-28

Laura Symul (08:39:48): > @Laura Symul has joined the channel

2024-04-10

Robert Ivánek (04:22:30): > @Robert Ivánek has joined the channel

2024-05-07

Kevin Stachelek (10:53:55): > @Kevin Stachelek has joined the channel

Pedro Baldoni (10:55:07): > @Pedro Baldoni has joined the channel

Tim Triche (10:55:41): > @Tim Triche has joined the channel

Izabela Mamede (10:55:50): > @Izabela Mamede has joined the channel

Jacques SERIZAY (10:56:00): > @Jacques SERIZAY has joined the channel

George Odette (10:56:19): > @George Odette has joined the channel

Amal Boukteb (10:58:36): > @Amal Boukteb has joined the channel

Arnab Mukherjee (10:58:48): > @Arnab Mukherjee has joined the channel

Harvinder Singh (10:58:55): > @Harvinder Singh has joined the channel

Janani Ravi (10:59:03): > @Janani Ravi has joined the channel

Jacques SERIZAY (11:55:04): > :wave:Hi all, I’m Jacques, currently a post-doc in France, and using a range of genomic approaches together with synthetic biology to understand the principles of chromatin organization:dna:. I have been contributing to Bioc for quite some time and I’m thrilled to be part of this group now:hugging_face:I’ve registered for the training course June 11-14 (4 * 4h) !

Tim Triche (12:03:26): > I recognize this name!:arrow_up:

Erick Navarro (12:26:28): > @Erick Navarro has joined the channel

Izabela Mamede (13:05:36): > Hi all! My name is Izabela, I am a PhD student from Brazil, I mostly work on RNA expression and Trascriptomics and my specific interest tool-development wise is isoform specific differential expression and RNA modifications. Here in Brazil we have a nioinformatics group which organizes a yearly summer course focused primarily o teaching at undergrad level. I have worked with some innitiatives translating Carpentries BioConductor material to Portuguese before. I am very excited to be a part of thus group!

Maria Doyle (13:08:04): > :wave:Welcome Jacques and Izabela! Your introductions are inspiring. To our new trainees: feel free to introduce yourselves whenever you’re ready. We’re eager to hear from each of you and to build a strong community together!

Erick Navarro (13:15:49): > Hi everyone! Im Erick, a Mexican PhD student at the University of British Columbia. My work focuses on modeling the contribution of the genome and the exposome differences to methylome variability in early human life. I’m very excited to be part of the group, learn and connect with you all!:relaxed:I will be taking the training course on June 17-20

Pedro Baldoni (13:58:29): > Hi all:wave:! I’m Pedro and I am currently a postdoc at the WEHI working in statistical bioinformatics as a member of the limma/edgeR group. Looking forward to contributing to the community and the opportunities to teach. I will be taking the training course on June 4-5.

Arnab Mukherjee (14:30:37): > Hello everyone, I’m Arnab Mukherjee, a PhD student at Manipal Institute of Technology, India. My research focuses on the intricate interplay between genetic and epigenetic mechanisms in lung cancer progression. Alongside my research, I’ve been actively involved in teaching Biomolecular Data Analytics to grad students, aiming to equip them with essential skills for navigating the complex landscape of biological data. Looking forward to contributing to the Bioconductor community and connect with you all.

George Odette (15:53:20): > Hello everyone. I am Steve George Odette, currently Msc. Student at JKUAT Kenya and and bioinformatician at CMB Kenya. My work centered on bacterial genomics and RNAseq analysis. For the training, I have booked the training in June 4-5 2024. Happy to be here.

2024-05-08

Arnab Mukherjee (06:06:55): > Hi, I have registered for the training course June 11 to 14.

Robert Ivánek (06:15:00): > Hi, I have registered for the training course June 11 to 14 too.

Princess Rodriguez (13:10:42): > @Princess Rodriguez has joined the channel

Princess Rodriguez (13:21:34): > Hi everyone, my name is Princess and I am currently an assistant professor at the University of Vermont. I teach an introductory and advanced bioinformatics course at UVM and am excited to utilize these teachings in my courses. I will be taking the training on June 17-20th. Nice to meet you all.

2024-05-14

Ziru Chen (03:43:39): > @Ziru Chen has joined the channel

Ziru Chen (03:44:10): > Hi, I have registered for the training courseJune 11-14 2024too. - Attachment (Eventbrite): Online Instructor Training, June 11-14, 2024 > The Carpentries Instructor Training

Tim Triche (09:35:49): > I finally signed up for the June 17th-20th session:face_exhaling:

2024-05-15

Amal Boukteb (05:40:44): > Hi, I Amal Boukteb. I am a PhD Student from Tunisia. I have registered for 4-5 June sessions

2024-05-16

Kevin Stachelek (12:56:06): > Hi everyone, I’m Kevin Stachelek at USC in Los Angeles. I’m registered for the June 11-14 session.

2024-05-31

Hamdi Furkan Kepenek (10:23:53): > @Hamdi Furkan Kepenek has joined the channel

2024-06-03

Hamdi Furkan Kepenek (13:29:54): > Hi everyone, I am Hamdi Furkan Kepenek from Turkiye. I am registered for the August13-16 session.

2024-06-05

irem Kahveci (02:47:11): > @irem Kahveci has joined the channel

2024-07-22

Arnab Mukherjee (12:09:00): > Hello everyone! I just received my Carpentries instructor certification. Many thanks to Bioconductor for this opportunity, I look forward to teach and contribute to the Bioc carpentries lessons soon.

Maria Doyle (13:00:26): > Well done,@Arnab Mukherjee, on receiving your certification! And thank you,@Amal Boukteb, for notifying us that you received yours as well. Congratulations to both of you!:clap::clap:

Amal Boukteb (13:03:44): > Thank you Maria > All Thanks for Bioconductor for this opportunity > Looking for our upcoming collaboration:star-struck:

Arnab Mukherjee (14:45:36) (in thread): > Thank you Maria! Many thanks to Bioconductor for this wonderful opportunity.:blush:

2024-07-31

Izabela Mamede (08:56:37): > Hello all! I have also just finished all the steps for my Carpentries Instructor certification process and should soon receive my certificate. Thanks a lot Maria and the BioConductor community for this opportunity! And I am look forward to contributing to the lessons and specially to helping host BioC workshops in Latin America.

Maria Doyle (10:07:02): > Well done,@Izabela Mamede!:clap:Congrats to you!:tada:

Erick Navarro (17:06:53) (in thread): > Do you know if there is any Latin America meeting within the carpentries?

Izabela Mamede (18:29:33) (in thread): > I saw them reaching out for instructors of carpentries workshops in Argentina and Chile this year, but I have not heard of specific meetings yet. My hope is that with more people certified we can organize to host BioC workshops yearly in Brazil

2024-08-09

Maria Doyle (06:12:41) (in thread): > That would be amazing@Izabela Mamede!

2024-08-15

Robert Ivánek (04:24:48): > Hi everyone, I have also got my Carpentries Instructor certificate. Looking forward to teaching in Oxford!

Enrique Mondragon (08:35:08): > @Enrique Mondragon has joined the channel

Maria Doyle (09:06:18): > Congratulations,@Robert Ivánek!:tada:Great to hear about your Carpentries Instructor certificate. Looking forward to your contributions:clap:

2024-08-17

Harvinder Singh (00:18:47): > Hi everyone, > I am Dr. Harvinder Singh, working as a Research Associate at PGIMER, Chandigarh, India. I have completed my Teaching Demonstration as of July 10, 2024. The remaining steps for me are the Welcome Session and the Get Involved step. I am looking to complete them before September 2nd. > Looking forward to connecting with you all! > Best, > Dr. Harvinder Singh

Maria Doyle (02:04:30): > Congrats on completing your Teaching Demonstration,@Harvinder Singh!:tada:You’re almost there—best of luck with the final steps!:blush:

2024-08-19

Angelique Trusler (09:01:09): > @Angelique Trusler has joined the channel

Angelique Trusler (09:09:04): > Hi all! I am Angelique Trusler, Community Manager at The Carpentries! I would like to invite you our:earth_africa:African Carpentries Community Call Thursday,22 August 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20240822T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.:calendar:Add to your calendar.This meeting can count as part of your checkout!On the agenda this month:Hear from Tajuddeen Gwadabe fromOpen Life Science! - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, August 22, 2024 at 10:00:00 am. - Attachment (Google Workspace): Google Calendar - Easier Time Management, Appointments & Scheduling > Learn how Google Calendar helps you stay on top of your plans - at home, at work and everywhere in between. - Attachment (we-are-ols.org): OLS | OLS > A not-for-profit organisation dedicated to capacity building and diversifying leadership in research worldwide

2024-08-20

Pedro Baldoni (09:18:32): > Just got my Carpentries certification!:fireworks:

Maria Doyle (10:18:38): > Congrats,@Pedro Baldoni!:tada:Amazing achievement—well done!:rocket:

2024-08-21

Maria Doyle (08:18:11) (in thread): > Hi everyone, > I’d like to welcome@Angelique Truslerto this#carpentrieschannel!:tada:As the Community Manager for Carpentries (Angelique) and Bioconductor (myself), we’re looking forward to strengthening the connections between our communities. This channel is a great space for us to share learnings, ask questions, and support each other as we work across both communities. > Angelique, it’s great to have you here. I’m sure your insights will be really valuable for all of us.

2024-08-22

Angelique Trusler (02:56:56) (in thread): > This a reminder of our:earth_africa:African Carpentries Community Call Thursday,TODAY 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20240822T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.

2024-08-27

Bharat Mishra (11:37:12): > @Bharat Mishra has joined the channel

2024-09-14

Harvinder Singh (01:28:50): > I’m thrilled to announce that I have received myInstructorCertificate! > A big thank you toMaria Doyleand the entireThe Carpentriesteam for this incredible opportunity. I am eager to start contributing to workshops, helping others develop key data skills, and continuing to grow as an educator in the data community.

2024-09-15

Angelique Trusler (11:49:59) (in thread): > Congratulations!

2024-09-16

Maria Doyle (09:10:49) (in thread): > Congratulations, Harvinder!:tada:So happy to hear you’ve received your certification! Looking forward to seeing you contribute to workshops and share your skills with the community. Great work!:clap:

2024-09-18

Pedro Baldoni (13:10:09): > Hi everyone. Are there any recommendations or guidelines for the schedule of thebioc-rnaseqworkshop? For example, is it designed to be taught over two full days? I’m asking because I’m planning an RNA-sequencing workshop for a conference and would love to teach thebioc-rnaseqworkshop. The venue has a strict 7-hour limit per workshop, and I’m not sure that’s enough time to fit everything in. I believe this workshop was taught during two full days during the last US BioC conference?

Maria Doyle (13:28:13) (in thread): > Hi Pedro, great to hear you’re planning to teach that workshop! I believe@David Shihtaught a 1 day version of it last year at BioCAsia so may have some pointers.

Pedro Baldoni (13:35:11) (in thread): > That’s great. So, is it somewhat flexible? I thought we were restricted in the sense that (1) we either cover the entire content (and call it a Bioc Carpentries workshop) or (2) we modify it as we see fit (with appropriate credit) but it can no longer be called a Bioc Carpentries workshop. This assumption comes from the Carpentries training we attended, but I might have misunderstood. The workshop would still be heavily based on thebioc-rnaseq

Maria Doyle (13:46:48) (in thread): > I think you’re right, and maybe@Angelique Truslercan confirm. David’s workshop was advertised as simply “RNA-seq analysis with R/Bioconductor” on the BiocAsia2023 websitehttps://biocasia2023.bioconductor.org

Maria Doyle (13:48:20) (in thread): > But we could still note it as a workshop using the Bioc Carpentries material on the page ofworkshopsthatI’mupdating.

Angelique Trusler (14:40:32) (in thread): > Thanks for tagging me@Maria Doyle. There are some requirements for a workshop to be called a Carpentries Workshop - you can read more about it here:https://carpentries.org/workshops/#workshop-core. Please let me know if you have any questions or comment:slightly_smiling_face: - Attachment (The Carpentries): What is a Carpentries Workshop? > The Carpentries is a fiscally sponsored project of Community Initiatives, a registered 501(c)3 non-profit organisation based in California, USA. We are a global community teaching foundational computational and data science skills to researchers in academia, industry and government.

2024-09-23

Angelique Trusler (03:00:13): > Hi all! > > This a reminder of our:earth_africa:African Carpentries Community Call Thursday,26 September 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20240926T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.:calendar:Add to your calendar.This meeting can count as part of your checkout!On the agenda this month:Networking Event! - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, September 26, 2024 at 10:00:00 am. - Attachment (Google Workspace): Google Calendar - Easier Time Management, Appointments & Scheduling > Learn how Google Calendar helps you stay on top of your plans - at home, at work and everywhere in between.

2024-09-24

Jacques SERIZAY (02:09:26): > Very excited to let you know that I finally received my Instructor Certificate:tada:I hope to be able to contribute to Bioc workshops very soon:slightly_smiling_face:

Jacques SERIZAY (02:09:48): > Thank you for this great opportunity:hugging_face:

Maria Doyle (06:01:08): > Congrats,@Jacques SERIZAY!:tada:Delighted to hear you’ve received your Instructor Certificate! Looking forward to seeing you contribute to BioC workshops soon.:blush:

Maria Doyle (06:55:42): > Just a quick note to let you know your status is now updated here:slightly_smiling_face:https://training.bioconductor.org/carpentries/instructors.html

Jenny Drnevich (12:10:11) (in thread): > I’m currently getting a 404 “There isn’t a GitHub Pages site here” error for that link

Maria Doyle (12:32:27) (in thread): > Thanks for flagging that, Jenny!:blush:It looks like the custom domain setup was temporarily disrupted, but it should be sorted now. Could you give it another try and let me know if it’s working for you?

Jenny Drnevich (12:32:55) (in thread): > Yes, I see it now!

Jasmine Baker (22:02:12): > @Jasmine Baker has joined the channel

2024-09-25

Maria Doyle (07:00:31): > :mortar_board:Exciting opportunity for Carpentries Instructors!We’re seeking instructors for the2025 Bioconductor African Coursesin Nairobi, Kenya and West Africa. Teach R/Bioconductor or RNA-seq analysis to foster local capacity and collaboration.:white_check_mark:**** Carpentries certification required ****:school:**** One-week commitment ****:luggage:**** Travel & accommodation coveredInterested? Complete ourexpression of interest formbyOct 21, 2024** - Attachment (Google Docs): Bioconductor African Courses 2025 - Instructor Expression of Interest > We are excited to announce the upcoming Bioconductor African Courses scheduled for 2025. The first course will take place in Nairobi, Kenya in March/April, with a second course planned for West Africa a few months later. These courses aim to build local capacity and foster a strong network of learners and instructors across Africa. > Course Structure: > Each weeklong course consists of two teaching modules and a BYO data day: > Monday & Tuesday: bioc-intro module (Introduction to genomic data analysis with R and Bioconductor) > Wednesday & Thursday: bioc-rnaseq module (Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor) > Friday: Bring your own (BYO) data day > What We’re Looking For: > We are seeking Carpentries-certified instructors to teach these modules. Each module will be taught by a pair of instructors—one international and one based in Africa. Additional local instructors may be included to provide more teaching opportunities. > Instructors will teach one module (either bioc-intro or bioc-rnaseq) but are expected to stay for the full week to assist as a helper in the other module and the final BYO data day. This fosters collaboration and community-building among participants and instructors. You can express interest in teaching either the Nairobi course, the West Africa course, or both. > Funding: > Thanks to funding from the Chan Zuckerberg Initiative (CZI), travel and accommodation expenses will be covered for instructors. For more details on this and other CZI-funded Bioconductor projects, please check out our blog post. > > How to Express Interest: > Please complete our expression of interest form by Monday, October 21st, 2024. The form will ask for your certification status, area of expertise, and preferred module and location. > We are considering the following dates for the Nairobi course: > March 24-28, 2025, or > March 31-April 4, 2025 > Dates for the West Africa course will be confirmed later. We aim to finalise the instructor line-up for Nairobi by the end of the year and will follow up regarding West Africa soon after. > Should you have any questions, feel free to reach out to us directly. > Thank you for your interest in contributing to this important initiative. We look forward to hearing from you! > Maria Doyle > Bioconductor Community Manager > Email: mailto:maria.doyle@ul.ie|maria.doyle@ul.ie

2024-09-26

Angelique Trusler (01:16:18): > Join usTODAY! - Attachment: Attachment > Hi all! > > This a reminder of our :earth_africa: African Carpentries Community Call Thursday, 26 September 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20240926T10&p1=1440&ah=1). :writing_hand::skin-tone-2: Please sign up on this collaborative document. :calendar: Add to your calendar. > > This meeting can count as part of your checkout! > > On the agenda this month: > Networking Event!

2024-10-03

Jessica Oviahon (20:30:26): > @Jessica Oviahon has joined the channel

2024-10-18

Maria Doyle (09:50:30): > :mortar_board:Exciting opportunity in Brazil for Carpentries Instructors and Bioconductor Presenters!We’re seeking a Carpentries-certified instructor to represent Bioconductor at the2025 Brazilian Genetics Society Meeting in Belém do Pará, Brazil. Helpco-teach a Bioconductor workshopand potentially present asymposiaorroundtableto raise awareness of Bioconductor in the Latin American bioinformatics and genetics communities.:white_check_mark:Carpentries certification required for co-teaching the workshop:school:August 13-16, 2025 (pending proposal approval):luggage:Travel & accommodation covered for the workshop instructor (grant funding or employer support also encouraged):information_source:* Interested in solely presenting a symposia or roundtable on Bioconductor? You’re welcome to apply! Travel support is prioritized for the workshop instructor, but the conference covers food and accommodation for presenters.Interested? Complete theexpression of interest formbyOct 26, 2024*!

2024-10-21

Angelique Trusler (03:00:16): > Hi all! > > This a reminder of our:earth_africa:African Carpentries Community Call Thursday,24 October 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20241024T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.:calendar:Add to your calendar.This meeting can count as part of your checkout!On the agenda this month::thinking_face:What are some potential challenges during a workshop you think we should be prepared for, and how would you plan to handle them? - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, October 24, 2024 at 10:00:00 am. - Attachment (Google Workspace): Google Calendar - Easier Time Management, Appointments & Scheduling > Learn how Google Calendar helps you stay on top of your plans - at home, at work and everywhere in between.

2024-10-23

Sounkou Mahamane Toure (11:48:26): > @Sounkou Mahamane Toure has joined the channel

2024-10-24

Angelique Trusler (03:43:11): > Join usTODAY! - Attachment: Attachment > Hi all! > > This a reminder of our :earth_africa:African Carpentries Community Call Thursday, 24 October 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20241024T10&p1=1440&ah=1). :writing_hand::skin-tone-2: Please sign up on this collaborative document. :calendar: Add to your calendar. > > This meeting can count as part of your checkout! > > On the agenda this month: > :thinking_face: What are some potential challenges during a workshop you think we should be prepared for, and how would you plan to handle them?

2024-11-25

Angelique Trusler (02:00:01): > Hi all! > > This a reminder of our:earth_africa:African Carpentries Community Call Thursday,28 November 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20241128T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.:calendar:Add to your calendar.This meeting can count as part of your checkout!On the agenda this month:What have we achieved during 2024:tada: - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, November 28, 2024 at 10:00:00 am. - Attachment (Google Workspace): Google Calendar - Easier Time Management, Appointments & Scheduling > Learn how Google Calendar helps you stay on top of your plans - at home, at work and everywhere in between.

2024-11-28

Angelique Trusler (01:38:15) (in thread): > Join usTODAY!

2024-12-03

Angelique Trusler (08:39:01): > #GivingTuesday, the global “movement that unleashes the power of radical generosity around the world”, is here. This year at The Carpentries, we appeal to you for donations of any amount to help support our transition to an independent NPO - Attachment (The Carpentries): Support The Carpentries’ Transition to Greater Autonomy With Your Donations > Thank you #GivingTuesday, the global “movement that unleashes the power of radical generosity around the world” is once again upon us. We turn to you, The Carpentries community, first to thank you for all that each of you has done for The Carpentries and our global community. We always say this, and we cannot stress it enough: at The Carpentries we are all that we are because of the generous contributions of our volunteer community members. We deeply appreciate and wish to express our gratitude often for the contributions and support we receive from our Instructors, Instructor Trainers, Lesson Developers, Maintainers, Curriculum Advisors, Lesson Program Governors, Code of Conduct Committee members, our Advisory Committee and Board of Directors, and all other members of our community. In whatever capacity you have given and continue to give to us, we thank you! - File (PNG): #GivingTuesday_Blue.png

2024-12-29

Yahya Jahun (04:02:24): > @Yahya Jahun has joined the channel

Andrew Su (12:21:25): > @Andrew Su has joined the channel

2025-01-09

Ammar Sabir Cheema (11:33:42): > @Ammar Sabir Cheema has joined the channel

2025-01-20

Angelique Trusler (03:00:10): > Hi all! > > This a reminder of our:earth_africa:African Carpentries Community Call Thursday,23 January 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20250123T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.This meeting can count as part of your checkout!On the agenda this month:On February 1st, The Carpentries will become an independent 501©(3) non-profit organisation! - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, January 23, 2025 at 10:00:00 am.

2025-01-23

Angelique Trusler (01:16:56) (in thread): > This a reminder of our:earth_africa:African Carpentries Community Call Thursday,TODAY 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20250123T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.This meeting can count as part of your checkout!On the agenda this month:On February 1st, The Carpentries will become an independent 501©(3) non-profit organisation! - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, January 23, 2025 at 10:00:00 am.

2025-02-25

Angelique Trusler (03:39:55): > Hi all! > > This a reminder of our:earth_africa:African Carpentries Community Call Thursday,27 February 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20250227T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.This meeting can count as part of your checkout!On the agenda this month:Engage with The Carpentries Community - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, February 27, 2025 at 10:00:00 am.

2025-02-27

Angelique Trusler (00:36:31) (in thread): > A reminder of the February African Carpentries Community Call today!

2025-03-24

Angelique Trusler (03:20:59): > Hi all! > > This is a reminder of our:earth_africa:African Carpentries Community Call on Thursday,27 March, 12:00 - 13:00 SAST/10:00-11:00 UTC (https://www.timeanddate.com/worldclock/fixedtime.html?msg=African+Carpentries+Call&iso=20250327T10&p1=1440&ah=1).:writing_hand:Please sign up on thiscollaborative document.This meeting can count as part of your checkout!On the agenda this month:Data Science in Somalia hosted by Ahmed Unshur - Attachment (timeanddate.com): Event Time Announcer - African Carpentries Call > Event Time Announcer shows time for African Carpentries Call in locations all over the world. In UTC it happens on Thursday, March 27, 2025 at 10:00:00 am.

Tim Triche (11:01:32): > hey@Angelique Trusleris the LLMs-in-Carpentries case study call of interest to this crowd?:wink:

Angelique Trusler (11:04:18) (in thread): > @Tim Tricheit definitely might be to some:https://bsky.app/profile/carpentries.carpentries.org/post/3ll4rpv3hoc2y - Attachment (bluesky): Attachment > REMINDER: The final pair of AI and The Carpentries sessions will take place tomorrow, Tuesday, 25 March, at 12:00 UTC and 21:00 UTC. You can sign up to join these discussions on the community sessions Etherpad. > > Read up on the discussions from the previous sessions: https://carpentries.org/blog/2025/03/essential-knowledge-and-common-misconceptions/ - Attachment (bluesky): Attachment > Upcoming community sessions next week > https://carpentries.org/community/events/ > Events are in UTC Time : > > :gb: UK Carpentry Community Monthly Call > 24 March 16:00 > > :mega: AI and The Carpentries: Session 3 - ⁠LLMs for Data Science: Case Studies to Inform Carpentries Curriculum > 25 March 12:00 and 21:00

2025-03-25

Maria Doyle (04:25:44): > Cross-posting here for reference:https://community-bioc.slack.com/archives/CUKAPEE1Y/p1742890291223809 - Attachment (linkedin.com): #bioconductor #bioinformatics #rprogramming #datascience #carpentries… | Bioconductor > :mortar_board::earth_africa: Bioconductor Kenya Course Kickoff! :tada: > > We're excited to announce that our first Bioconductor course in Africa started yesterday in Nairobi! Day 1 was filled with learning and collaboration. Rachel Zozo, International Institute of Tropical Agriculture (IITA) Kenya Country Representative, gave the opening remarks, and Laurent Gatto from de Duve Institute, and Michael Landi from IITA taught the Bioconductor Carpentry Introduction to R and Bioconductor lesson. > > Later this week, sessions will be led by Fabricio Almeida-Silva from VIB, Laurah Ondari from IITA, and zedias Chikwambi from AIBST. The course organisation was led by Trushar Shah from IITA and Maria Doyle from University of Limerick, through a grant secured by Aedin Culhane and Maria Doyle. Thanks to other organisers who helped make this happen, Charlotte Soneson from Friedrich Miescher Institute for Biomedical Research and Umar Ahmad from Africa CDC. > > Thanks to Chan Zuckerberg Initiative and UL Global for their funding. > > #Bioconductor #Bioinformatics #RProgramming #DataScience #Carpentries #CZIScience #LearningTogether #Africa

2025-03-27

Angelique Trusler (02:38:23) (in thread): > This is a reminder of our:earth_africa:African Carpentries Community Call on Thursday,TODAY, 12:00 - 13:00 SAST/10:00-11:00 UTCPlease sign up on thiscollaborative document.This meeting can count as part of your checkout!On the agenda this month:Data Science in Somalia hosted by Ahmed Unshur