#biocasia2020
2020-01-09
Qian Liu (00:30:09): > @Qian Liu has joined the channel
Qian Liu (00:30:10): > set the channel description: BiocAsia2020, Oct. 17-18, Beijing
2020-02-04
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2020-05-10
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2020-07-31
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2020-09-08
Qian Liu (11:09:13): - Attachment: Attachment > BioCAsia is coming to a screen near you this October (15-18). This will be the sixth Bioconductor Asia meeting that aims to bring together researchers with an interest in Bioconductor and R to exchange ideas and expertise. > We’re planning a fun and welcoming virtual meeting with talks and workshops to suit beginners through to more experienced users. > To learn about the amazing line-up of speakers, register for the event (it’s free!) or submit an abstract (short and lightning talk slots are available) please visit https://biocasia2020.bioconductor.org/. Abstracts are due Friday September 25. > We hope to e-see you there!
Qian Liu (11:09:33): - Attachment (twitter): Attachment > Calling all Bioconductors in Asia! #BioCAsia is coming to a screen near you in 2020 (Oct 15-18). Amazing line-up of speakers, including #rstats #bioconductor co-founder Robert Gentleman. Abstract submission open until Sept 25. Learn more by visiting https://biocasia2020.bioconductor.org/ 1/2
Qian Liu (11:09:40): - Attachment (twitter): Attachment > Calling all Bioconductors in Asia! #BioCAsia is coming to a screen near you in 2020 (Oct 15-18). Amazing line-up of speakers, including #rstats #bioconductor co-founder Robert Gentleman. Abstract submission open until Sept 25. Learn more by visiting https://biocasia2020.bioconductor.org/ 1/2
Qian Liu (11:09:56): - Attachment: Attachment > Please feel free to RT and spread the word! :party_parrot:
Federico Marini (11:23:37): > @Federico Marini has joined the channel
Charlotte Soneson (11:41:43): > @Charlotte Soneson has joined the channel
Ruizhu HUANG (12:38:39): > @Ruizhu HUANG has joined the channel
Peter Hickey (17:46:57): > @Peter Hickey has joined the channel
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2020-09-09
stefano mangiola (07:05:24): > @stefano mangiola has joined the channel
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2020-09-10
Qian Liu (16:41:40): > set the channel description: BiocAsia2020, Oct. 15-18, Beijing
2020-09-13
Qian Liu (22:55:08): > The conference agenda is up
Check out and explore the interactive calendar. You can set your own timezone, use different view modes, etc. - Attachment (biocasia2020.bioconductor.org): BioC Asia 2020 > Oct 15 - 18
Qian Liu (22:57:30): - File (PNG): Screen Shot 2020-09-13 at 10.55.42 PM.png - File (PNG): Screen Shot 2020-09-13 at 10.55.59 PM.png - File (PNG): Screen Shot 2020-09-13 at 10.56.52 PM.png - File (PNG): Screen Shot 2020-09-13 at 10.57.06 PM.png
2020-09-15
Taoyu Mei (09:52:59): > @Taoyu Mei has joined the channel
2020-09-21
Belinda Phipson (20:16:16): > @Belinda Phipson has joined the channel
2020-09-26
RGentleman (21:20:34): > @RGentleman has joined the channel
2020-10-02
Paul Harrison (03:22:54): > @Paul Harrison has joined the channel
Qian Liu (16:42:10): > Thank you to those who have submitted the talks/workshops/posters to BiocAsia2020. The notification of decisions has been sent out. NOTE that poster submission will be open until Oct. 10th. All are encouraged to submit directly to F1000Research following the instructions here:https://biocasia2020.bioconductor.org/call-for-abstracts - Attachment (biocasia2020.bioconductor.org): BioC Asia 2020 > Oct 15 - 18
mirna (16:47:37): > @mirna has joined the channel
2020-10-06
Jianhong (14:27:22): > @Jianhong has joined the channel
2020-10-09
stefano mangiola (21:05:26): > Hello@Qian Liuwould it be possible to add Maria Doyle as presenter with me in the tidy transcriptomics workshop?@Maria Doyle
Qian Liu (21:23:00): > @stefano mangiolayes, I can add her name to our calendar schedule in the author list. Thanks!
Qian Liu (22:25:36): > Added! Thanks@stefano mangiolafor bringing this up! I’ll add the co-authors for other speakers also.:slightly_smiling_face: - File (PNG): Screen Shot 2020-10-09 at 10.23.56 PM.png - File (PNG): Screen Shot 2020-10-09 at 10.24.09 PM.png
Jonathan Goeke (23:50:02): > @Jonathan Goeke has joined the channel
2020-10-10
stefano mangiola (05:47:01): > Of all workshops Maria Doyle and I gave we found thatpools (e.g. from zoom) is the single best thing we experienced for making a workshop engaging in a efficient way. It would be amazing to have it for this conference:wink:
Qian Liu (23:31:08): > Thanks@stefano mangiolafor the great suggestion. I didn’t know that zoom has this function… Will confirm with our meeting staff to see if we can use it in our workshop session. Thank you!
2020-10-13
Noah Pieta (21:31:03): > @Noah Pieta has joined the channel
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2020-10-14
Joselyn Chávez (00:33:12): > @Joselyn Chávez has joined the channel
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Qian Liu (10:40:28): > <!channel>The BioCAsia2020 conference commences in 10 hours!:tada::tada:Please try to login 5 mins before our scheduled time. Here is also a wechat group QR code for those who speak Chinese. Given to the timezone difference, some speakers would not be able to present at their Q&A session, please post your questions in the zoom chat board, and we will follow up with the speakers and post the answers later on our slack and wechat channels. Thank you and look forward to seeing you soon!
Qian Liu (10:41:23): - File (JPEG): wechatgroup_QRcode.jpg
Qian Liu (10:42:32): > The first day, Dr. Jin Gu from Tsinghua University will be the Chair, and I will be the co-host. Please feel free to reach out if you have any questions. Thanks!
Umar Ahmad (14:48:38): > @Umar Ahmad has joined the channel
Qian Liu (19:45:53): > The conference starts now! please login using the zoom info:
Qian Liu (19:46:06): > https://zoom.com.cn/j/87547191068?pwd=ZlNiM1VrbEZ1Z1pLY3V4eTMyTkpzUT09会议 ID：875 4719 1068 > 密码：2020 - Attachment (Zoom Video): Join our Cloud HD Video Meeting > Zoom is the leader in modern enterprise video communications, with an easy, reliable cloud platform for video and audio conferencing, chat, and webinars across mobile, desktop, and room systems. Zoom Rooms is the original software-based conference room solution used around the world in board, conference, huddle, and training rooms, as well as executive offices and classrooms. Founded in 2011, Zoom helps businesses and organizations bring their teams together in a frictionless environment to get more done. Zoom is a publicly traded company headquartered in San Jose, CA.
Nitika Kandhari (19:57:16): > @Nitika Kandhari has joined the channel
Yingxin Lin (20:15:16): > @Yingxin Lin has joined the channel
Shian Su (22:35:25): > @Shian Su has joined the channel
Qian Liu (23:52:31): > Thank you all for attending today. Tomorrow’s talk start at 8am beijing time, please try to log in 5 mins before. See you all tomorrow. Thank you very much!
2020-10-15
rohitsatyam102 (03:33:15): > @rohitsatyam102 has joined the channel
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2020-10-16
Qian Liu (10:56:32): > <!channel>For the 3rd day, the conference starts at 9am Beijing Time (1 hour later than the first 2 days). PLease try to login 5 mins before. See you all tomorrow.
Qian Liu (10:57:02): > 17th October 2020 Beijing time:9:00-9:55 am > Elucidating Alternative Isoform Variation using Massive RNA-Seq DataYi Xing, Center for Computational and Genomic Medicine, Children’s Hospital of Philadelphia, USA > > 10:00-10:55 am > Detecting Local Genetic Correlations with Scan StatisticsLin Hou, Tsinghua University, CHINA > > Data integration and visualization of phylogenetic treesGuangchuang Yu, Southern Medical University, CHINA > > 11:15-11:45 am > proActiv: Estimating promoter activity from RNA-seq dataJoseph Lee,National University of Singapore / Genome Institute of Singapore, SINGAPORE > Benchmarking UMI-based single cell RNA-sequencing preprocessing workflowsYue You, WEHI, AUSTRALIA > > WORKSHOPS IN PARALLEL (11:50-12:45 pm) > Analysis and visualization of microbiome datasets using MicrobiotaProcess (中文）[track 1]Shuangbin Xu, Southern Medical University, CHINA > Analysis of RNA sequencing data following a tidy data paradigm [track 2]Stefano Mangiola, WEHI, AUSTRALIA
Qian Liu (10:57:16): > Here is the zoom link for the main conference and workshop track 1.https://zoom.com.cn/j/87547191068?pwd=ZlNiM1VrbEZ1Z1pLY3V4eTMyTkpzUT09ID：875 4719 1068 > password：2020 > > Here is the zoom link for workshop track 2 (Stefano Mangiola).https://zoom.com.cn/j/85808446047?pwd=UFhjRnMzMElhSVcwOW41aHVkOEx4Zz09ID: 858 0844 6047 > PWD: 2020
2020-10-17
Vince Carey (17:11:07): > @Vince Carey has joined the channel
Matt Ritchie (20:29:18): > <!channel>For the 4th and final day of BioC Asia 2020, the conference starts at 9am Beijing Time. Please aim to login 5 mins before the session starts. > > Today’s schedule is available athttps://biocasia2020.bioconductor.org/scheduleand is also repeated below: > > 9:00-9:55 AM Keynote TalkXuegong Zhang,Machine Learning for Biological Knowledge Discovery10:00-10:25 AM Invited TalkTingting Li,Proteome-scale analysis of phase-separated proteins in immunofluorescence images10:25-10:40 AM Contributed TalkXueyi Dong,The long and the short of it: unlocking nanopore long-read RNA sequencing data with short-read tools10:40-10:45 AM Lightning TalkShixiang Wang,Sigflow: an automated and comprehensive pipeline for cancer genome mutational signature analysis(available athttps://f1000research.com/posters/9-1217) > > 10:45-11:00AM Poster sessionShixiang WangKozo Nishida,transomics2cytoscape: a Bioconductor package for Trans-Omic 2.5D visualization(available athttps://f1000research.com/slides/9-1242) > > 11:00-11:15 AM Break
> > 11:15-11:45 AM Contributed TalksShian Su,Visualising Nanopore Methylation Data using NanoMethViz**** Antonio Colaprico,Interpreting pathways to discover cancer driver genes with Moonlight11:50-12:45 PM Workshops (parallel), Track 1:Luyi Tian & Yue You,An introduction to single-cell RNA-sequencing analysis in Bioconductor (中文）Track 2:Hani Jieun Kim & Yingxin Lin,CiteFuse: multi-modal analysis of CITE-seq data**12:50-13:00 PM Closing Remarks - Attachment (biocasia2020.bioconductor.org): BioC Asia 2020 > Oct 15 - 18 - Attachment (f1000research.com): Poster: Sigflow: an automated and comprehensive pipeline for cancer genome mutational signature analysis has been published by F1000Research. > Read this work by Liu XS, at F1000Research. - Attachment (f1000research.com): Slide: transomics2cytoscape: a Bioconductor package for Trans-Omic 2.5D visualization has been published by F1000Research. > Read this work by Nishida K, at F1000Research.
Qian Liu (21:03:53): > <!channel>Dr. Zhang in the keynote talk would show some nice photos taken years ago!:slightly_smiling_face:
Kozo Nishida (22:33:23) (in thread): > I’m not good at English (sorry). It’s difficult to answer your comments or questions live. (So if you have any comments or questions,) I’d appreciate it if you could use F1000Research comment system, this Slack channel, or Zoom chat. > > 10:45-11:00AM Poster session Shixiang Wang > Kozo Nishida, transomics2cytoscape: a Bioconductor package for Trans-Omic 2.5D visualization (available at[https://f1000research.com/slides/9-1242](https://f1000research.com/slides/9-1242)) > - File (PNG): image.png
Peter Hickey (23:26:46): > @Kozo Nishidaポスターありがとうございます。 > cytoscape は知らないから、どんなリソースを読むことをおすすめしますか。 > 日本語は上手じゃないから、英語で: I am not familiar with Cytoscape but I would like to know more so I can better understand your work. What Cytoscape resources would you recommend reading?
Kozo Nishida (23:33:43) (in thread): > I recommend you to try these practical hands-on Rmd collectionhttp://cytoscape.org/cytoscape-automation/for-scripters/R/notebooks/index.html - File (PNG): image.png
Peter Hickey (23:35:11) (in thread): > wow these are very comprehensive! thank you
Kozo Nishida (23:38:56) (in thread): > These Rmds control Cytoscape (from R) with Bioconductor’s RCy3 packages (to automate commonly used Cytoscape visualization workflow).https://www.bioconductor.org/packages/release/bioc/html/RCy3.htmlRCy3’s vignettes are also good, please give it a try. - Attachment (Bioconductor): RCy3 > Vizualize, analyze and explore networks using Cytoscape via R.
Kozo Nishida (23:44:09) (in thread): > I’m trying to write any Cytoscape workflow in R (or in Python). > There are also some Cytoscape Rmd workflows inhttps://github.com/nrnb/gsod2019_kozo_nishida
2020-10-18
Kozo Nishida (00:00:08) (in thread): > (Once we leave and re-join Zoom,) it seems that Zoom does not show the past chats. I’m sorry if anyone wrote comments in Zoom’s chat. Now I can’t check the past chats.
Matt Ritchie (00:16:41): > Congrats on your first Bioconductor package@Kozo Nishida! Sorry to hear the chat is cleared upon re-joining. I can’t see any new questions in the general chat, but you may be missing ones sent to you directly. Apologies again!
Emi Tanaka (00:43:36) (in thread): > Wow your Japanese is impressive@Peter Hickey!
Nathan (03:38:05): > @Nathan has joined the channel
2020-10-19
Matt Ritchie (02:19:19): > Thank you for attending BioCAsia2020. If you have any suggestions to improve our meeting, please take a few minutes to complete the survey below:https://forms.gle/hHvuhFe8tTKAXBQ48(Google Form, for use outside of China)https://www.wjx.cn/jq/94233313.aspx(for use within China) > > Thanks again for participating and we hope to see you again next year! - Attachment (Google Docs): Feedback: BioC Asia 2020 > Thanks for being part of BioC Asia 2020 (Virtual Meeting, 15-18 October 2020). To help us improve for this event for next time, please tell us about your experience. This questionnaire should take about 5 minutes to complete. Questions? Contact mailto:hickey@wehi.edu.au|hickey@wehi.edu.au
Nitika Kandhari (19:07:59): > Hi, will the video recordings of the session talks be made available to the participants? > Thank you.
2020-10-20
Matt Ritchie (00:40:18): > Thanks for the question@Nitika Kandhari. Yes, the goal is to make the recordings available, most likely via the Bioconductor YouTube channel (as was done for theBioC 2020 conferenceheld in July) - Attachment (YouTube): Martin Morgan, Levi Waldron, Opening Remarks edited
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2020-11-05
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2020-11-11
Kozo Nishida (23:44:56): > TheBio”Pack”athoncommunity would like to organize BioC Asia 2021. > I would like you to create BiocAsia2021 repository (inhttps://github.com/Bioconductor) and discuss with the tasks for the event. (likehttps://github.com/Bioconductor/BiocAsia2020/issues?q=is%3Aissue+is%3Aclosed)
2020-11-12
Peter Hickey (00:01:23): > i think we’d need someone from the core team to create a repo under the Bioconductor teamname. in the meantime, you could start a repo and then transfer ownership to Bioconductor if/when the time comes
Kozo Nishida (00:20:30): > I see:+1:> in the meantime, you could start a repo and then transfer ownership to Bioconductor if/when the time comeshttps://github.com/biopackathon/BiocAsia2021
2020-12-05
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2021-05-30
Matt Ritchie (19:36:08): > The R Consortium, who sponsored last year’s BioCAsia have put together a blog post about last year’s meeting:https://www.r-consortium.org/blog/2021/05/28/bioconductor-asia-membership-increasing-due-to-going-virtual - Attachment (R Consortium): Bioconductor Asia Membership Increasing Due to Going Virtual - R Consortium > R Consortium talked to Bioconductor Asia co-organizer Matt Ritchie about the upcoming conference (BioC Asia 2021), how COVID has affected attendance at the conference, and how they deal with multilingualism…
2021-07-16
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2024-05-14
Lori Shepherd (10:18:48): > archived the channel