Bioconductor Galaxy

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Conference Community Galaxy GBCC2025 Bioconductor

12 months ago Maria Doyle ▴ 100

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1.5k

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DESeq2 Galaxy pca

updated 2.7 years ago by swbarnes2 ★ 1.4k • written 2.7 years ago by mbxdn1 • 0

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DESeq2 RNASeq Galaxy

updated 3.7 years ago by Michael Love 43k • written 3.7 years ago by István • 0

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ballgown StringTie galaxy rnaseq

updated 3.4 years ago by Kevin Blighe ★ 4.0k • written 5.3 years ago by lakshmi9c • 0

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deseq2 galaxy

updated 5.5 years ago by Michael Love 43k • written 5.5 years ago by mikelirastor • 0

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deseq2 galaxy

8.5 years ago gkuffel ▴ 10

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bioconductor next-generation sequencing galaxy

updated 8.8 years ago by Lucas Schiffer ▴ 240 • written 8.8 years ago by efraim.culfa • 0

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rnaseq galaxy deseq2

updated 9.6 years ago by Michael Love 43k • written 9.7 years ago by Marcelo Pereira ▴ 70

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DESeq2 Galaxy

updated 9.6 years ago by Michael Love 43k • written 9.6 years ago by Marcelo Pereira ▴ 70

9 results • Page 1 of 1

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Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k

I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112

Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k

we can investigate this issue. thank you for bringing it to our attention

Comment: deseq2 filter the low counts by Michael Love 43k

> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…

Comment: deseq2 filter the low counts by empty_mt • 0

Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …

Comment: deseq2 filter the low counts by Michael Love 43k

Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering

Votes

Comment: "Watched Tags" are being erased rather than updated

Comment: deseq2 filter the low counts

Answer: DESeq2 interactions

Answer: Important: Bioconductor Release 3.22 Delayed

A: Multi-level experiments in Limma

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