Message-ID: <CH2PR10MB3784531BD408DF81DD2F4A91A1150@CH2PR10MB3784.namprd10.prod.outlook.com>
Date: 2019-06-04T16:08:09Z
From: Éric Fournier
Subject: [Bioc-devel] Possible need for a GenomicIntersection package
Hi,
in a lot of the bioinformatics analysis I have to carry out, I end up needing to take an arbitrary number of GRanges objects and flatten them before generating a matrix of all elements that overlap. This is useful for, say, comparing replicates in a ChIP-seq experiment, or caracterizing the types of interactions in a HiC or ChIA-PET experiment. As such, I've written quite a few utility functions around that concept, for example to generate Venn plots of the intersections, querying specific intersections, or plotting heatmaps of correlation.
My question is two-fold: are there already existing packages that already incorporate some of that core functionality, and if not, would repackaging those functions as a package be of interest to the Bioconductor community at large?
Thank you for your time,
-Eric Fournier
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