Re: [Bioc-devel] ExpData in SummarizedExperiment

2025-05-07 Thread Michael Love
yes I'll bump DESeq2 in release now [[alternative HTML version deleted]] ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel

Re: [Bioc-devel] ExpData in SummarizedExperiment

2025-05-07 Thread Hervé Pagès
I think you're right. I'm going to work on identifying the exact list but my first rough estimate indicates at least 85 packages affected. DESeq2 is one of them e.g. with the current 1.48.0 binary (Windows or Mac) one gets:     library(DESeq2)     countData <- matrix(1:100,ncol=4)     conditi

Re: [Bioc-devel] ExpData in SummarizedExperiment

2025-05-07 Thread Michael Love
Just to clarify: do all packages that define classes on top of SummarizedExperiment need to bump their version number in release to fix? ___ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel

Re: [Bioc-devel] ssh key

2025-05-07 Thread Kern, Lori via Bioc-devel
I can assist with this and will be in touch off list for further communication Lori Shepherd - Kern Bioconductor Core Team Roswell Park Comprehensive Cancer Center Department of Biostatistics & Bioinformatics Elm & Carlton Streets Buffalo, New York 14263 Fro

[Bioc-devel] ssh key

2025-05-07 Thread Simon Anders
Hi I would like to patch my old Bioc package "HilbertVis", which I haven't touched since many years. In fact, I haven't done any work on Bioc packages since you switched to the current git server. I've tried to activate my account using the old maintainer e-mail of HilbertVis (sand...@fs.tum