#eurobioc2020

2020-10-26

Kevin Rue-Albrecht (05:18:21): > @Kevin Rue-Albrecht has joined the channel

Kevin Rue-Albrecht (05:18:21): > set the channel description: EuroBioC2020 attendees

Davide Risso (05:20:11): > @Davide Risso has joined the channel

Charlotte Soneson (05:20:11): > @Charlotte Soneson has joined the channel

Wolfgang Huber (05:20:11): > @Wolfgang Huber has joined the channel

Gabriele Sales (05:20:12): > @Gabriele Sales has joined the channel

Laurent Gatto (05:20:12): > @Laurent Gatto has joined the channel

Simone Bell (05:20:12): > @Simone Bell has joined the channel

Levi Waldron (05:20:12): > @Levi Waldron has joined the channel

Kevin Rue-Albrecht (05:20:23): - Attachment: Attachment > I cannot find information on abstract length for EuroBioc conference website. Does anyone know if there are strict limits on the abstract length?

Leo Lahti (05:20:36): > @Leo Lahti has joined the channel

Kevin Rue-Albrecht (05:21:48): > I think you’re correct. I don’t think we have set an explicit limit on abstracts.

Kevin Rue-Albrecht (05:22:49): > Oh wait, theOpenReview.netform does have a limit of 5000 characters though.

Chris Vanderaa (05:28:20): > @Chris Vanderaa has joined the channel

Leo Lahti (06:20:18): > ahaa the channel exists.

Leo Lahti (06:20:49) (in thread): > Thanks!

Kevin Rue-Albrecht (06:28:07): > i just created it:grimacing:

Martin Morgan (09:25:35): > @Martin Morgan has joined the channel

Mike Smith (11:42:54): > @Mike Smith has joined the channel

2020-10-27

Nick Owen (05:24:26): > @Nick Owen has joined the channel

2020-10-30

Kevin Rue-Albrecht (08:14:09): > Hello community! > > The EuroBioc2020 submission deadline is extended toMonday, November 16th! > > The organising committee welcomes submissions for: > * talks > * workshops > * posters > * birds-of-a-feather session topics > The scope for submissions is far from limited to Bioconductor packages; we welcome contributions as workflows, live demonstrations, interactive Shiny applications, data visualisations, new concepts, packages in development, calls for feedback and collaborations, … and all the many more hidden gems produced by the community; surprise us! > > Submit your contribution hereWe look forward to seeing you all online for this stimulating and community-driven conference! - Attachment (OpenReview): EuroBioC 2020 Conference > Welcome to the OpenReview homepage for EuroBioC 2020 Conference

Mike Smith (08:44:59) (in thread): > You should have waited another hour before posting this. Now my submission can be kicked down the road from “after lunch” to “after lunch on Nov. 16th”!

Robert Castelo (10:24:47): > @Robert Castelo has joined the channel

Sean Davis (11:20:44): > @Sean Davis has joined the channel

2020-11-03

Chris Vanderaa (13:17:05): > Is the registration for the EuroBioc2020 already open ? The website says November 1st but I can’t see any further link:thinking_face:https://eurobioc2020.bioconductor.org/registration - Attachment (eurobioc2020.bioconductor.org): EuroBioc2020 > European Bioconductor Virtual Meeting 14-18 December 2020

Charlotte Soneson (14:14:16): > Ah yes, we should update that. Registration is open and there is a link from the main landing page.

Chris Vanderaa (14:33:30) (in thread): > oh I see it now ! thanks !

2020-11-05

Marcel Ramos Pérez (12:10:29): > @Marcel Ramos Pérez has joined the channel

2020-11-13

David Zhang (09:01:05): > @David Zhang has joined the channel

Lukas Weber (12:01:07): > @Lukas Weber has joined the channel

Lukas Weber (12:03:38): > Is there a suggested format for putting together a birds-of-a-feather proposal? (We are now putting together one on SpatialExperiment / spatial transcriptomics - just wondering how long/detailed the proposal doc should be. Thanks!)

Dario Righelli (12:04:34): > @Dario Righelli has joined the channel

Helena L. Crowell (12:04:35): > @Helena L. Crowell has joined the channel

Dario Righelli (12:07:13) (in thread): > My information are: until it fills into the abstract field…:joy:

Dario Righelli (12:12:36) (in thread): > I think it’s 5000 characters

Laurent Gatto (12:37:25) (in thread): > There is no need to absolutely fill out the full abstract field (unless you rally have to) - think of the reviewer that will have to read the abstracts!:slightly_smiling_face:

Lukas Weber (12:37:47) (in thread): > thanks!:joy:

Charlotte Soneson (13:16:26) (in thread): > I don’t think there’s a specific format (there are some examples from BioC2020 athttps://github.com/Bioconductor/BioC2020/issues). I think usually it’s quite helpful to specify the expected output of the session.

Lukas Weber (13:17:19) (in thread): > thanks, that is helpful

Leo Lahti (19:27:46) (in thread): > Yes this helps

2020-11-16

Leonardo Collado Torres (21:46:39): > @Leonardo Collado Torres has joined the channel

Leonardo Collado Torres (21:48:37): - File (JPEG): Image from iOS

Leonardo Collado Torres (21:50:51): > I also didn’t check that the deadline was at 7pm US Eastern >.<‘

Leonardo Collado Torres (21:53:42): > I told this person to try emailing iteurobioc2020@stat.unipd.it

Leonardo Collado Torres (21:54:04): > Hopefully that’s ok. Sorry about this!

2020-11-17

Kevin Rue-Albrecht (03:07:56): > We’re meeting on Thursday, so there are another couple of days before we make decisions, though obviously Open Review has now automatically closed. Good idea to email, they’ll get a more official answer there.

Leonardo Collado Torres (14:51:40) (in thread): > thanks Kevin for the info!

2020-11-18

Mireia Ramos-Rodríguez (04:59:33): > @Mireia Ramos-Rodríguez has joined the channel

2020-11-23

Charlotte Soneson (10:49:33): > Thanks to everyone who submitted an abstract for EuroBioc2020! We are finalizing the reviews and will be sending out the decisions in the coming days.

Brenda Pardo (16:16:48): > @Brenda Pardo has joined the channel

Nick Eagles (16:16:48): > @Nick Eagles has joined the channel

Abby Spangler (16:16:48): > @Abby Spangler has joined the channel

2020-11-25

Leonardo Collado Torres (11:21:46): > Hi! For workshops, is the plan to use Bioconductor 3.12 or 3.13? I know that Sean Davis’ repo uses the bioconductor devel docker image, but that was just before Bioc 3.12 was released and most importantly, when the Bioc devel branch is even, it uses the R release branch, meaning that CRAN provides binaries for macOS and Windows for the CRAN packages. Plus, the Bioc core team works really hard before the main Bioc conference to make sure that everything is working well on bioc-devel. > > Anyway, I madehttps://github.com/LieberInstitute/SPEAQeasyWorkshop2020/blob/master/.github/workflows/check-bioc.ymlwith Bioc 3.12 for now. This is for the workshop by@Nick Eagles& Josh Stolz

Kevin Rue-Albrecht (12:12:36): > Excellent point - For iSEE, we’re usingbioconductor/bioconductor_docker:devel, which means Bioconductor 3.13. > There is no strong argument in our case, we usually simply focus on presenting the core stable functionality anyway, but it’s nice to have access to the latest upcoming features. > > Ultimately, I would leave it up to workshop authors to decide which version they wish to present (either 3.12 or 3.13, but nothing earlier, obviously). The nice thing about containers is that the choices for one workshop doesn’t affect the others. > I can see the potential confusion for users, if they attend multiple workshops that use different Bioconductor releases, although that should really not be an issue as each workshop container provides vignettes and documentation for that particular version. > > In summary, I would encourage the use of 3.13 where possible, but I don’t have any issue with the use of 3.12 if authors are more comfortable with it, or if their devel version is not ready for the workshop. > Happy to hear thoughts of others on the organising committee.

Sean Davis (12:50:36) (in thread): > Yep. No need to have everyone commit to the same version. The workshop author is responsible for doing testing, etc.

Kevin Rue-Albrecht (12:54:22) (in thread): > I’ve also been thinking (from first-hand experience) about authors who give multiple workshops on the same topic, across multiple versions of Bioconductor. > In the current set up (http://workshop.bioc.cancerdatasci.org/), I assume that every new workshop is just added to the list - i.e. without replacing any earlier version of the workshop about the same package or topic. > My point here being that even if authors present a workshop for Bioconductor 3.12, they’ll always have another chance to present another workshop for 3.13+

Kevin Rue-Albrecht (12:56:23) (in thread): > @Sean Davis…. don’t hate me: how about stratifying the workshops by the Bioconductor version that they use? > Although I guess you can’t know without launching the container:confounded:

Kevin Rue-Albrecht (12:57:14) (in thread): > i.e. I would have picture an additional selectize to pick a version of Bioconductor, and then the list of workshops would update to the list available for that version of Bioconductor

Kevin Rue-Albrecht (12:58:24) (in thread): > Probably more work than it’s worth right now, but I’m picturing how the list of choices in the current selectize is going to grow over the years, if we stick to the current setup

Leonardo Collado Torres (16:44:24): > Thanks for the reply Kevin!

2020-11-27

Sean Davis (12:15:28) (in thread): > I’m working on additional bells-and-whistles that include tagging, full text search of descriptions, usage stats, and the ability to develop “Collections” that can be easily constructed for specific purposes (eg., a Eurobioc2020 collection).

Welliton de Souza (13:07:44): > @Welliton de Souza has joined the channel

2020-11-28

Rory Stark (12:37:57): > @Rory Stark has joined the channel

2020-11-30

eugenia.galeota (04:05:13): > @eugenia.galeota has joined the channel

2020-12-01

Mirko Signorelli (11:46:42): > @Mirko Signorelli has joined the channel

2020-12-02

Konstantinos Geles (Constantinos Yeles) (05:42:49): > @Konstantinos Geles (Constantinos Yeles) has joined the channel

2020-12-03

Leo Lahti (06:25:46): > The EuroBioC2020 conference schedule not yet online although the event will be in 2 weeks from now:https://eurobioc2020.bioconductor.org/conference_schedule - Attachment (eurobioc2020.bioconductor.org): EuroBioc2020 > European Bioconductor Virtual Meeting 14-18 December 2020

Leo Lahti (06:27:20): > Is there any information when the final official schedule will appear?

Laurent Gatto (06:53:21): > The schedule was discussed this morning during the organisation meeting and will be published on the web page shortly.

Alan O’C (20:29:20): > @Alan O’C has joined the channel

2020-12-04

Steffen Neumann (02:56:36): > @Steffen Neumann has joined the channel

Steffen Neumann (03:00:55): > Hi, I have never seen the*.mdway for URL links like > > This repository contains material for the European *Bioconductor* > annual conference. [View the conference web site][1]. > > onhttps://github.com/Bioconductor/EuroBioc2020/edit/master/README.mdbut it points to the wrong website. Should behttps://eurobioc2020.bioconductor.org/conference_schedulebut I don’t dare write a pull request lest I break the [1] magic. - Attachment (eurobioc2020.bioconductor.org): EuroBioc2020 > European Bioconductor Virtual Meeting 14-18 December 2020

Alan O’C (04:05:32): > There’ll be a[1]:https://foo.comsomewhere lower down

Davide Risso (04:13:11): > Yes, that’s a typo (note the missing “c” in EuroBio2020), I will fix it thanks!

Davide Risso (04:14:00) (in thread): > fixed!

Davide Risso (07:22:27): > <!here>The schedule is live athttps://eurobioc2020.bioconductor.org/conference_schedule - Attachment (eurobioc2020.bioconductor.org): EuroBioc2020 > European Bioconductor Virtual Meeting 14-18 December 2020

Luke Zappia (07:50:47): > @Luke Zappia has joined the channel

Leo Lahti (09:39:08): > Hi - there are mistaken names in the program, “Short talk: Felix GM Ernst - MicrobiomeExperiment: a new class for microbiome data” -> presenter should be Leo Lahti (who submitted this). Not sure how I should have marked the speaker but any chance to correct this, or where we can request that?

Leo Lahti (09:45:04): > And actually same for “Birds of a feather 3: The emerging R ecosystem for microbiome research (Felix GM Ernst)” -> I will run this (Leo Lahti)

Leo Lahti (09:46:46): > The poster “Leo Lathi” -> “Leo Lahti”:smile:

Davide Risso (10:14:15): > I fixed all of these now. Thanks for checking!

2020-12-05

Mahmoud Ahmed (23:48:39): > @Mahmoud Ahmed has joined the channel

2020-12-07

Constantin Ahlmann-Eltze (06:21:09): > @Constantin Ahlmann-Eltze has joined the channel

Pablo Rodriguez (08:32:53): > @Pablo Rodriguez has joined the channel

Pablo Rodriguez (08:36:42): > Sorry to bother everyone, I registered to get the free ticket almost a month ago, I got the confirmation that it was ok, but I never got any link to the conference itself, how do we get it?

Davide Risso (08:43:14): > Hi Pablo, the eventbrite confirmation means you are a confirmed attendee. You will get an email with a link to join the conference before next Monday. Note that the link will not be active until the first day of the conference.

Pablo Rodriguez (08:45:50): > Ok, thanks a lot!

2020-12-08

Sean Davis (10:16:51): > New workshop URL is up. There may be cosmetic changes coming to make the workshops easier to find, but this should be good to get going with testing.http://app.orchestra.cancerdatasci.org/

Ying Chen (20:02:30): > @Ying Chen has joined the channel

2020-12-09

Hena Ramay (14:42:31): > @Hena Ramay has joined the channel

Hena Ramay (14:45:21): > Hi, I registered for Eurobioc2020 on Sunday but have not received any confirmation. Can anyone please let me know who would be the person to contact about this?Just want to make sure I did get registered. Thanks!

Davide Risso (14:49:03): > Hi@Hena Ramayyou should have received a confirmation email from Eventbrite, I think. Perhaps it’s in your spam folder?

Davide Risso (14:51:01): > Anyway, I see your order and I can confirm that you are registered. We will send out an email shortly to all attendees with the link to the conference.

Hena Ramay (16:00:36) (in thread): > Thanks Davide!

Sean Davis (20:26:57): > Updated “Orchestra” workshop site is here:http://app.orchestra.cancerdatasci.org/. Login with github, google, or create an account. 47 workshops are pre-loaded.

2020-12-10

Johannes Rainer (09:03:34): > @Johannes Rainer has joined the channel

CristinaChe (13:59:47): > @CristinaChe has joined the channel

2020-12-11

Koen Van den Berge (08:45:31): > @Koen Van den Berge has joined the channel

Davide Risso (09:48:23): > Hey everyone! If you registered for EuroBioc2020 check your inbox for the Eventbrite email with the link to the conference platform!

Katharina Imkeller (09:59:50): > @Katharina Imkeller has joined the channel

Johannes Rainer (10:37:16) (in thread): > just a minor, stupid thing - I updated my profile and added a profile picture and it is showing when I’m logged in, but when I scroll to my workshop still only “JR” without picture is showing - do you know how I could change that?

Davide Risso (10:44:35) (in thread): > mmm… not sure… which email address did you use? Perhaps I registered you as a speaker with a different one?

Davide Risso (10:45:04) (in thread): > I usedjohannes.rainer@eurac.edu

Johannes Rainer (11:58:12) (in thread): > That’s also what I used to register, strange. Anyway, it’s not a big deal - as long as I can then present:slightly_smiling_face:

Federico Agostinis (12:50:33): > @Federico Agostinis has joined the channel

Federico Agostinis (12:58:40): > Hi, I will present a short workshop. I have some problems with orchestra, my workshop works regularly using docker locally but on orchestra is still loading since this morning,@Sean Davishave you some suggestion to overcome this problem?

Kevin Rue-Albrecht (13:05:45) (in thread): > Hi. I just got word that you capitalized the Docker image name in the form, while Docker forces names to be all lowercase. The name was fixed in the cloud platform. It should work now.

Kevin Rue-Albrecht (13:06:17) (in thread): > I’ll also update the form to check this lowercase rule in the future.

Sean Davis (13:07:45): > A small thing on the website–I think there is not a link to the workshop site available, just the docker container and github repos.

Federico Agostinis (13:08:13) (in thread): > Thank you again

Davide Risso (13:10:30) (in thread): > @Kevin Rue-Albrechtcan you add this please?:slightly_smiling_face:

Sean Davis (13:11:19) (in thread): > Thx!

Kevin Rue-Albrecht (13:17:46) (in thread): > I can do indeed. You do meanhttp://app.orchestra.cancerdatasci.org/right?

Kevin Rue-Albrecht (13:18:09) (in thread): > Is email registration sufficient to protect from robots and such?

Kevin Rue-Albrecht (13:26:45) (in thread): > At the moment, I have > > ## Cloud platform > > Live instances of the workshops can be launched in the cloud freely at <[http://app.orchestra.cancerdatasci.org/](http://app.orchestra.cancerdatasci.org/)>. > > Shall I add an acknowledgement to funding or hosting? If so, how would you like it to be phrased?https://github.com/Bioconductor/EuroBioc2020/pull/12

Dania Machlab (13:49:31): > @Dania Machlab has joined the channel

Dario Righelli (13:55:54): > I’ve had an issue on the GHA for the Workshop failing because the ofusethis package missing. > Thanks to@Kevin Rue-AlbrechtI solved it by adding into theDockerfile these two commands > * This one just before the Bioconductor installation: > RUN apt-get update && \`` apt-get -y install libgit2-dev > * This second one has to be placed right after the Bioconductor installation: > RUN Rscript --vanilla -e "options(repos = c(CRAN = 'https://cran.r-project.org')); BiocManager::install('usethis')"

Martin Morgan (13:58:01): > Does this need to be fixed in the upstream docker? What are you using (?:devel)? bringing@Nitesh Turagainto this

Nitesh Turaga (13:58:07): > @Nitesh Turaga has joined the channel

Nitesh Turaga (13:58:55): > I’m here and following now.

Nitesh Turaga (14:00:38): > @Dario Righelliwhich image are you using?

Dario Righelli (14:01:01) (in thread): > bioconductor/bioconductor_docker:develhttps://github.com/drighelli/EuroBioc2020_SpatialWorkshop/actions/runs/416069094/workflow

Nitesh Turaga (14:53:58): > I’ve fixed the issue upstream on thebioconductor/bioconductor_docker:develimage. Please pull the image and you can verify by checking the image version on your R console with, > > > Sys.getenv('BIOCONDUCTOR_DOCKER_VERSION') > [1] "3.13.7" > > The version should be3.13.7

Nitesh Turaga (14:54:23): > It might take about 5 mins for the change to propagate to Dockerhub.

2020-12-12

Huipeng Li (00:40:12): > @Huipeng Li has joined the channel

Sean Davis (23:30:53): > Apologies, everyone, but I had to wipe the user accounts from Orchestra to make some updates. That means that when you’ll need to create a new account before logging in again. Again, really sorry. I have changed the way that I handle the accounts now, so this won’t happen again.

2020-12-13

Nitesh Turaga (00:26:44): > Hi, can someone confirm if thegertpackage is installing on the images now and working? I’ve made bug fixes in both images.develandRELEASE_3_12.

Charlotte Soneson (03:52:13) (in thread): > Thanks@Sean Davis- I just tried to log in with my GitHub account, but get the following: - File (PNG): Screenshot 2020-12-13 at 09.50.29.png

Dario Righelli (09:23:02): > Is it possible to do breakout rooms during a BoF?

Davide Risso (10:00:24): > I don’t think so… unless you want to move the discussion to the “tables” but then you will have a max of 8 people per table…

Dario Righelli (10:00:49): > mmm ok thanks

Sean Davis (10:52:58) (in thread): > Thanks,@Charlotte Soneson. Is anyone else having trouble authenticating? If so, could you let me know?

Sean Davis (11:09:28): - Attachment: Attachment > Thanks, @Charlotte Soneson. Is anyone else having trouble authenticating? If so, could you let me know?

Marcel Ramos Pérez (11:39:09) (in thread): > @Sean DavisI also get the same message when using the GitHub auth. I signed up using email instead

Sean Davis (11:46:58) (in thread): > Can you try once more with github,@Charlotte Soneson?

Charlotte Soneson (12:00:50) (in thread): > I still get the same error with GitHub

Kelly Eckenrode (13:41:28): > @Kelly Eckenrode has joined the channel

2020-12-14

Davide Risso (04:11:58) (in thread): > Me too… just tried and same error with GitHub

Mikhail Dozmorov (07:19:59): > @Mikhail Dozmorov has joined the channel

Davide Risso (07:22:37): > <!here>since gmail seems to be having issues, I’m posting here the link for the conference just in case you can’t get it from your email:https://www.airmeet.com/e/0652b8c0-3a3e-11eb-babe-4130ba19b548 - Attachment (Airmeet): EuroBioc2020 | Airmeet > European Bioconductor Meeting 2020

Mikhail Dozmorov (07:24:17) (in thread): > It still requires authentication with Gmail. Using another address gives: This Airmeet is private > Access reserved for authorized attendees only. Please login using an email ID authorized by the host to access this Airmeet

Davide Risso (07:25:22) (in thread): > Mmm… have you tried to choose “login with email” and use your gmail account, would that work?

Mikhail Dozmorov (07:26:40) (in thread): > Yes, but Gmail is indeed down. Using gmail just throws an error: Sorry, something went wrong there. Try again.

Davide Risso (07:28:38) (in thread): > Just to be clear: were you able to access the platform?

Sean Davis (07:29:01) (in thread): > The “login with email” with a gmail account will not likely work.

Mikhail Dozmorov (07:29:06) (in thread): > No

Sean Davis (07:29:30) (in thread): > I suspect that anyone who signed up with a gmail account will be out of luck for the time being.

Davide Risso (07:29:38) (in thread): > I’m afraid there is not much we can do on our side other than waiting for google to resolve their issues?

Mikhail Dozmorov (07:34:14) (in thread): > It seems to be resolved. I was able to login with Gmail

Hans-Rudolf Hotz (07:41:31): > @Hans-Rudolf Hotz has joined the channel

Nadine Bestard-Cuche (08:06:42): > @Nadine Bestard-Cuche has joined the channel

Ruizhu HUANG (08:32:38): > @Ruizhu HUANG has joined the channel

Robert Castelo (11:00:08): > Hi, I missed the beginning of the conference, are there recordings and is it possible to access them already? (i’ve been poking around the airmeet site and could not find it) Thanks!

Laurent Gatto (11:02:29): > All the talks are automatically recorded by Airmeet. The organisers will post them at some point (I think shortly after the conference, time permitting).

Kevin Rue-Albrecht (11:46:47): > it’s back: twitter coverage analysis for eurobioc2020:https://kevinrue.github.io/twitter-stats/EuroBioc2020.html:smile:Updated hourly

Jeroen Gilis (14:05:44): > @Jeroen Gilis has joined the channel

Hena Ramay (14:23:29) (in thread): > Thanks! Would love to have the recordings as the first time slot is too early for my timezone:slightly_smiling_face:.

Dario Righelli (15:56:21): > Slides from the Spatial BoF (all other links inside):https://docs.google.com/presentation/d/1boL0sOhtyryd2q6f8jyP-5i1oYRlKSmw3Invw3DTdPc/edit#slide=id.p

2020-12-15

Francesc Català (05:42:02): > @Francesc Català has joined the channel

Davide Risso (12:20:45): > <!here>poster session happening now in the Arena!

Marcel Ramos Pérez (17:19:15) (in thread): > @Sean DavisI was able to login after registering with my email but today I am not able to do that with my password. I may have mixed passwords up. I tried theForgot Passwordoption but I didn’t get an email.

Sean Davis (17:40:42) (in thread): > @Marcel Ramos Pérezjust create a new account. As I mentioned, I removed older accounts to update my system and it looks like I don’t have a new one for you.

Marcel Ramos Pérez (17:59:39) (in thread): > That’s strange. I created it after your announcement. Thanks ! I’ll create a new one.

Sean Davis (18:03:27) (in thread): > If you recreate and have problems, let me know.

Sean Davis (18:03:51) (in thread): > It is possible I missed the entry for you in which case we can troubleshoot further.

Marcel Ramos Pérez (18:14:47) (in thread): > So far so good:+1:

Sean Davis (18:18:28) (in thread): > Yep, I didn’t miss it. I see it now. I guess my announcement timing might have been off or I did something after the first announcement. In any case, looks like you are back.

2020-12-16

Francesc Català (11:41:32): > @Francesc Català has left the channel

Sean Davis (14:04:37): > Workshop cluster monitoring over the past two days.https://snapshot.raintank.io/dashboard/snapshot/XoQHxv6TM7FbL6jJcphggMz8EOP4D56vGuess when the workshops were happening….

2020-12-17

Rene Welch (17:49:21): > @Rene Welch has joined the channel

2020-12-18

Chris Vanderaa (03:46:25): > Here is the link to the presentation about MS-based single-cell proteomics (at 16.05) :https://f1000research.com/slides/9-1479 - Attachment (f1000research.com): Slide: A standardized computational framework for the analysis of mass spectrometry-based single-cell proteomics data has been published by F1000Research. > Read this work by Vanderaa C and Gatto L, at F1000Research.

Elyas Heydari (06:40:01): > @Elyas Heydari has joined the channel

Anne-Maud Ferreira (12:47:37): > @Anne-Maud Ferreira has joined the channel

Anne-Maud Ferreira (12:52:22): > Hi all, thank you for the great conference. Here the link to my slides about “CyTOF data analysis with Bioconductor Packages”:https://f1000research.com/slides/9-1487 - Attachment (f1000research.com): Slide: CytoF data analysis with Bioconductor packages has been published by F1000Research. > Read this work by Ferreira AM, at F1000Research.

Aedin Culhane (17:12:37): > @Aedin Culhane has joined the channel

Aedin Culhane (17:14:22): > 10/10 for great meeting. well done organizers.:fast_parrot::fast_parrot::grinning::100::clap::clap:My only suggestion would be for meeting style rather than webinar style zoom for BoF or smaller breakout sessions (aka everyone can have video on/speak)

Martin Morgan (17:51:09) (in thread): > yes a really amazing effort!

Leo Lahti (18:01:48): > What an amazing community it is.

Sean Davis (20:29:45): > Workshop owners, DM me it you want reporting on workshop launch counts.

Sean Davis (20:45:24): > Here is the breakdown of the number of people launching 1, 2, 3… workshops: > > 1 73 > 2 18 > 3 11 > 4 6 > 6 1 > 5 1 > > In other words, 73 people launched only 1 workshop, 18 launched 2, etc.

2020-12-19

Johannes Rainer (12:55:48): > Anybody knows if it’s possible topublishworkshop material on F1000Research?

Kevin Rue-Albrecht (14:41:35): > I guess workshops could be considered like workflows, e.g.https://f1000research.com/articles/5-2122if you’re asking about publishing the pkgdown itself, you’d probably need to discuss that directly with f1000 editors - Attachment (f1000research.com): F1000Research Article: A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor. > Read the latest article version by Aaron T.L. Lun, Davis J. McCarthy, John C. Marioni, at F1000Research.

Leonardo Collado Torres (23:58:52): > I also published there the recountWorkflow

2020-12-20

Charlotte Soneson (15:33:00) (in thread): > If not, it might be suitable for JOSE:https://jose.theoj.org/about - Attachment (jose.theoj.org): Journal of Open Source Education > Journal of Open Source Education (JOSE) is an educator friendly journal for publishing open-source educational materials and software.

2020-12-22

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2020-12-31

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Vince Carey (07:37:24): > Are the videos of conference talks collected? I don’t see a link on thebioconductor.org

2021-01-22

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Levi Waldron (12:29:16): > archived the channel