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Analytical Approaches for ATAC-seq Data Analysis. dlvr.it/RYpCy7

This looks super useful for compiling various overlaps for genomic regions

Linking big biomedical datasets to modular analysis with Portable Encapsulated Projects biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Great example of multiple awesome #communities working well #together. Honored to have been able to contribute. #usegalaxy #refgenie #cvmfs #referencedata #opendata

Linking big biomedical datasets to modular analysis with Portable Encapsulated Projects biorxiv.org/content/10.110… Code: github.com/pepkit docs: pep.databio.org/en/latest/. Really useful stuff out of Nathan Sheffield

PEPATAC: An optimized ATAC-seq pipeline with serial alignments biorxiv.org/cgi/content/sh… #biorxiv_genomic

Bedshift: perturbation of genomic interval sets biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Ref genie is some pretty slick work from Nathan Sheffield. If you don’t know, now you know.

Anyone else interested in switching from HPC environment modules to linux containers to manage shared group software? Here's how I did it: databio.org/posts/modules_…

Refget: standardised access to reference sequences biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Identity and compatibility of reference genome resources biorxiv.org/cgi/content/sh… #biorxiv_genomic

New paper in Genome Biology! genomebiology.biomedcentral.com/articles/10.11…

Identity and compatibility of reference genome resources paper is out in NARGAB: academic.oup.com/nargab/article…

New bioinformatics paper: Embeddings of genomic region sets capture rich biological associations in lower dimensions doi.org/10.1093/bioinf…

ATAC-seq pipeline PEPATAC paper now published in NARGAB: doi.org/10.1093/nargab…

Our paper on standardizing sample metadata is out in GigaScience: academic.oup.com/gigascience/ar…

From biomedical cloud platforms to microservices: next steps in FAIR data and analysis: doi.org/10.1038/s41597… -- Read our new perspective on biomedical cloud computing at Scientific Data.

BEDMS: A metadata standardizer for genomic regionattributes biorxiv.org/cgi/content/sh… #biorxiv_genomic

Need to combine BED files into a consensus set? Our paper with methods to do this just came out in NAR! --Methods for constructing and evaluating consensus genomic interval sets academic.oup.com/nar/article/52…