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Charlotte Soneson proslijedio/la je Tweet
Asked to write a chapter about RNA-seq counts modeling, I used
#rstats bookdown to put all the material online. Includes some new workflow pieces like tximeta for import and swish for transcript level:http://mikelove.github.io/counts-modelHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
Congratulations to
@HWenpin on her first preprint with me, Zhicheng Ji and Hongkai Ji@jhubiostat! We benchmarked 18#singlecell#rnaseq imputation methods and found varying performance across analyses https://www.biorxiv.org/content/10.1101/2020.01.29.925974v1 …pic.twitter.com/fqJNnECsvO
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Charlotte Soneson proslijedio/la je Tweet
Bioconductor
@Bioconductor#rstats community members@KevinRUE67@CSoneson@FedeBioinfo Aaron Lun get a shoutout due to their award winning#shiny app#iSEE at#rstudioconf


It builds upon #shiny and also#SummarizedExperiment, both packages I
^^
#fixedTheTypospic.twitter.com/aoO6tnrsrZ
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Charlotte Soneson proslijedio/la je Tweet
While you're all finalizing your proposals for tomorrow we are delighted to announce
@stephaniehicks as keynote for the#rstats in#lifesciences track at#erum2020! Stephanie is asst. prof. at@JohnsHopkins Data Science Lab and co-host of@CorrespondAuth http://stephaniehicks.com pic.twitter.com/6iyc4H3wcY
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Charlotte Soneson proslijedio/la je Tweet
Very happy to share this review where
@rp_mccord,@Noam_Kaplan and I discuss classic and new approaches to study 3D chromosome structure, and how they can help discovering biological functionhttps://twitter.com/MolecularCell/status/1221856786518405122 …
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Charlotte Soneson proslijedio/la je Tweet
Registration to
#erum2020 is now open! We have strived to keep registration fees as low as possible. We would like to thank all the volunteers and the sponsors who helped us making this possible! Hurry up and register at https://2020.erum.io/registration/#rstatspic.twitter.com/DVp5LI9ghM
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Charlotte Soneson proslijedio/la je Tweet
Bioc2020 Registration Now Open! The committee is also accepting calls for abstracts for posters/workshops/talks. More information can be found https://bioc2020.bioconductor.org/
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Charlotte Soneson proslijedio/la je Tweet
My personal bias is for
@CrowellHL's muscat::simData, if you're interested in multi-sample multi-condition experimentsHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
Also biased .. but I would say that
@CSoneson's countSimQC package is quite essential to make sure your synthetic data mimics the properties of real data.Hvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
Congratulations to
@CalgaroMatteo for his first paper! https://www.biorxiv.org/content/10.1101/2020.01.15.907964v1 … This is the result of a very fun and productive collaboration with@LeviWaldron1@LabRomualdi and@nicola_vitulo! A thread.Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
Assessment of single cell RNA-seq statistical methods on microbiome data https://biorxiv.org/cgi/content/short/2020.01.15.907964v1 …
#bioRxivHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
The FMI has had its own in-house Computational Biology platform since 2004. In a new interview, leader
@mbstadler talks about how this dynamic group has evolved through the data revolution of the last decade and what the future holds for the field
http://bit.ly/2tgbecr pic.twitter.com/A2BrMEnlFP
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Charlotte Soneson proslijedio/la je Tweet
Curious to get some feedback
As of now, it is a minimal Shiny app that parses `sessionInfo()` as well as `devtools::session_info()` outputs, and that was enough to save me time and headbanging sessions
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Charlotte Soneson proslijedio/la je Tweet
Ever wanted to compare quickly the output of 2
#rstats sessionInfo? Updated a package on a Shiny server, and things break while locally all is fine?
Reporting a bug and wanna spot the differences?
The try out https://github.com/federicomarini/sessionDiffo … (small side idea w @CSoneson)Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
Job alert
: We’re looking for an experienced lab manager to join our team. We’re studying how cells collaborate in tissues using single cell genomics and RNA microscopy, contact me for details. Please RT, thanks! #jobsearch#baselHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
Today in the
#FMIAdventCalendar is the#QuasR software brought to you by@mbstadler and the FMI#computationalbiology team to analyse data from high throughput sequencing experiments. Read more here!
http://bit.ly/2rQenyW pic.twitter.com/xY9Cises8V
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Charlotte Soneson proslijedio/la je Tweet
Yesterday,
@k3yavi (center), successfully defended his thesis (my first PhD student to do so)! It's been an honor to watch him grow as a scientist, researcher, and leader. He'll be sorely missed in our lab, but I'm excited to see the awesome things he will do. Congrats, Avi!pic.twitter.com/Ni6xxJwdNe
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Charlotte Soneson proslijedio/la je Tweet
So here’s my plug: if you are a tool developer, we’ve put forward a proposal for how we can help: reference sequence hashing allows for the possibilty of identifying the provenance at a later stage. Eg CRAM includes this as well
@GA4GHhttps://www.biorxiv.org/content/10.1101/777888v1 …Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
This is a topic near and dear to my research: the need for reporting package version and annotation provenance for computational reproducibility in
#RNAseq. A short recap and a plughttps://twitter.com/BriefingBioinfo/status/1203929611622649856 …Prikaži ovu nitHvala. Twitter će to iskoristiti za poboljšanje vaše vremenske crte. PoništiPoništi -
Charlotte Soneson proslijedio/la je Tweet
... but a special thanks to
@lgatt0 and the organizers team, flawless job
And to the co-hackers that joined @CSoneson and me in expanding the iSEE universe, so many valuable ideas thrown in and made real - I put some notes here https://github.com/Bioconductor/EuroBioc2019/issues/4#issuecomment-564676971 …pic.twitter.com/iAnF9oAJUw
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