@BioContainers

A community-driven project to create and manage bioinformatics software containers

 Cambridge, England
BioContainers.pro
Joined August 2015
  • Tweets354
  • Following41
  • Followers866
8Media
Replying to @idvb87
We fixed the error, should be working now
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Exciting news! #SAGE is now integrated into quantms.org, thanks to the amazing @OpenMSTeam and @michaellazear. Joining COMET (The STABLE) and MSGF (the Deeper), SAGE brings its speed, efficiency, and youthful vibe to #quantms. Let's celebrate at #HUPO2023! 🎉
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✨ In 2022, there is a total of 496 services within #ELIXIR. Including: #LSLogin #ELIXIRAAI @FAIRsharing_org #ELIXIRTeSS @BioContainers #BioTools 👀 Find out more in our 2022 annual report: elixir-europe.org/sites/defa…
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#quantms is now a #preprint. quantms: A cloud-based pipeline for #proteomics reanalysis enables the quantification of 17521 proteins in 9,502 human samples. researchsquare.com/article/r… Thanks to @OpenMSTeam @DemichevLab, @nf_core, @BioContainers, #BioConda and @nextflowio team’s. 🧵

quantms: A cloud-based pipeline for proteomics reanalysis enables the quantification of 17521...

Public proteomics data is rapidly increasing, creating a computational challenge for large-scale reanalysis. Here, we introduce quantms, an open-source cloud-based pipeline for massively parallel...

researchsquare.com
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BioContainers retweeted
Evan Floden
@EvanFloden25 May 2023
Very excited to partner with Genomics England on this one.
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BioContainers retweeted
Phil Ewels@tallphil6 May 2023
Had a lot of fun doing this - a nice beginner friendly tutorial 😊 Take your #Python analysis script and build it into a command-line tool, ready for release via @pypi / #bioconda / @BioContainers 🐍🐳🎉 Watch now on YouTube: youtube.com/watch?v=hOuS6mXC…

nf-core/bytesize: Converting Python scripts into packages for PyPI, Bioconda & Biocontainers

Phil Ewels shows you how to take a Python script and turn it into a...

youtube.com
nf-core@nf_core2 May 2023
Hej, todays @nf_core #bytesize talk about python script packaging with Phil Ewels will start in 8 minutes, 1pm CEST. Find the zoom link here: nf-co.re/events/2023/bytesiz…

Bytesize: Converting Python scripts into packages for PyPI, Bioconda & Biocontainers

Phil Ewels - Seqera Labs

nf-co.re
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BioContainers retweeted
V@vsoch24 Apr 2023
Our paper "Automated Discovery of Container Executables" is published in the Journal of Open Research Software! 👉 doi.org/10.5334/jors.451. This was fun work with @MarcoDeLa83 and Audrey Stott from @PawseyCentre , @mathgeorgia, and Matthieu Muffato of @sangerinstitute.
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BioContainers retweeted
V@vsoch24 Apr 2023
We created automated pipelines that would not only discover new @BioContainers to add to our online registry, but also executables of interest inside! Our journey included new software, databases, and automation to help developers maintain their own registries. Each of these...
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Recent version 1.1.0 of quantms is now out. You can now perform DIA using DIA-NN, DDA-TMT, DDA-LFQ, and Phospho localization analysis. Everything is based on standard file formats including mzML, SDRF, mzTab. Great collaboration with @DemichevLab @OpenMSTeam @nf_core teams.
nf-core@nf_core20 Mar 2023
Pipeline release! nf-core/quantms v1.1.0 (Quantitative mass spectrometry workflow. Currently supports proteomics experiments with complex experimental designs for DDA-LFQ, DDA-Isobaric and DIA-LFQ quantification.) See the changelog: github.com/nf-core/quantms/r…

Release nf-core/quantms v1.1.0 - Berlin · nf-core/quantms

These release includes the following major changes: Bugfixes and speed increases in the OpenMS tools due to version update to 2.9.1 Improvements in logging by adding many more process.ids Large re...

github.com
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Time for release 🚀. Let me introduce you to the PRIDE Archive USI Viewer @pride_ebi ebi.ac.uk/pride/archive/usi. A Spectrum Viewer for every MS in PRIDE Archive. 🧵
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Hi there. Today we have written a full tutorial about how to download data from @pride_ebi (ebi.ac.uk/pride/markdownpage…). We have now 4 options: https, FTP, Aspera, and the new streaming service. 🧵

PRIDE Archive

The world's largest data repository of mass spectrometry-based proteomics data.

ebi.ac.uk
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Would you be interest in a introduction paper about how to use AI tools like Github Copilot in Bioinformatics software development?
76%Yes
17%No
7%Waste your time
95 votes • Final results
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I'm so happy today. An open-source, community project I have been contributing for so long from the begining continues flying high. aws.amazon.com/blogs/hpc/bio…

BioContainers are now available in Amazon ECR Public Gallery | Amazon Web Services

Today we are excited to announce that all 9000+ applications provided by the BioContainers community are available within ECR Public Gallery! You don’t need an AWS account to access these images, but...

aws.amazon.com
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Announcement at #NextflowSummit - @BioContainers available in ECR @awscloud #container registry aws.amazon.com/blogs/hpc/bio…

BioContainers are now available in Amazon ECR Public Gallery | Amazon Web Services

Today we are excited to announce that all 9000+ applications provided by the BioContainers community are available within ECR Public Gallery! You don’t need an AWS account to access these images, but...

aws.amazon.com
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BioContainers retweeted
Angel@delagoya12 Oct 2022
Really excited to announce this one - we've been working with the @BioContainers group to make all of their images available on ECR Public Gallery. This means that bioinformatics containers will not be subject to throttling on AWS. Nice. aws.amazon.com/blogs/hpc/bio…

BioContainers are now available in Amazon ECR Public Gallery | Amazon Web Services

Today we are excited to announce that all 9000+ applications provided by the BioContainers community are available within ECR Public Gallery! You don’t need an AWS account to access these images, but...

aws.amazon.com
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Shoutout to @BioContainers for making computing on the cloud easy 😀 More biologist should be using containerized software, and more trainees should be taught how to use it. (or learn on their own)
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If you want to learn about the three leading cloud solutions for proteomics data analysis, make sure you register for this workshop. @galaxyproject #TPP @nextflowio #quantms abrf.org/workshops-webinars #Proteomics #MSProteomics #Cloud
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Friendly reminder every tool submitted to Bioconda also gets a Docker container from @BioContainers and a Singularity image from @galaxyproject
Nabil-Fareed Alikhan @[email protected]@happy_khan23 Jun 2022
In this post I discuss software containers and why Binfies can't shut up about them - and reveal one of Bioinformatics' darkest secrets. happykhan.com/posts/dark-sec… tdlr; Containers allows us to hid fragile "academic" code we write in a neat singular black box for you to enjoy.
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BioContainers retweeted
Proteomics@proteomics9 Jun 2022
The @MyABRF Cloud Computing Workshop Registration is Now Open: abrf.memberclicks.net/cloudc… #nextflow #TransProteomicPipeline #usegalaxy
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Making @BioContainers compatible with M1 Mac ARM architecture is really important for my work going forwards -- anyone else? github.com/BioContainers/con…

linux/arm64/v8 Architecture images · Issue #425 · BioContainers/containers

Hi, We are starting to be issued with M1 macs at our institution and we are getting docker errors like: docker: Error response from daemon: image with reference biocontainers/biocontainers:v1.2.0_c...

github.com
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