Bioconductor VRanges

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860

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somaticsignatures vranges readvcfasvranges

6.2 years ago guillaume.dachy • 0

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1.9k

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variantannotation vcf readvcf vranges

updated 6.3 years ago by Michael Lawrence ★ 11k • written 6.3 years ago by david.mas • 0

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variantannotation VRanges R Rle

updated 6.4 years ago by Valerie Obenchain ★ 6.8k • written 6.4 years ago by Jayendra Shinde • 0

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somaticsignatures somaticsignatures package readvcfasvranges vranges

7.3 years ago • updated 7.2 years ago guillaume.dachy • 0

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vranges vcf to vranges

7.8 years ago Bogdan ▴ 670

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somaticsignatures vranges

updated 8.4 years ago by Julian Gehring ★ 1.3k • written 8.4 years ago by arsala521 ▴ 10

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granges vranges readvcfasvranges somaticsignatures

updated 8.6 years ago by Michael Lawrence ★ 11k • written 8.6 years ago by jpluta26 • 0

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SomaticSignatures mutationContext VRanges

updated 9.2 years ago by Julian Gehring ★ 1.3k • written 9.2 years ago by tesa.severson ▴ 10

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variantannotation vranges readvcf readvcfasvranges metadata

9.7 years ago summerela • 0

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variantannotation granges DNAStringSetList findoverlaps Vranges

9.7 years ago summerela • 0

10 results • Page 1 of 1

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Comment: Combining RNAseq and microarray data using edgeR/limma-voom by Adam Marstrand • 0

Thank you!

Comment: Combining RNAseq and microarray data using edgeR/limma-voom by Adam Marstrand • 0

Hi Gordon, Thanks for the answer! This makes a lot of sense. Your suggested pipeline (separate processing of datasets -> gene set analyses…

Comment: How many of my genes from my gene list are in each KEGG pathway? by josephasmith1310 • 0

> You can compare the number in the column setSize versus the number of > genes in core_enrichment. The former corresponds to the number of…

Comment: EuroBioC2024 abstract submission is open! by Esperan • 0

Great information about the EuroBioC2024 conference! https://openreview.net/group?id=bioconductor.org/EuroBioC/2024/Conferences [slope](htt…

Answer: Combining RNAseq and microarray data using edgeR/limma-voom by Gordon Smyth 51k

I agree with James, although I tend to combine analyses using geneset tests rather than by meta analysis tools like GeneMeta. > My questio…

Votes

Answer: Combining RNAseq and microarray data using edgeR/limma-voom

Answer: How do I merge a list of GRanges?

A: p.adjust BH generates duplicate values

Answer: Adjusted p-values become NA when sub-setting samples

Comment: Suggestion for FGSEA and GSEA creation for C57BL/6J Mice

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