Bioconductor Getseq

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circulargenome ORFik getSeq

3.6 years ago hauken_heyken ▴ 80

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850

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signeR getseq

updated 5.5 years ago by renan.valieris ▴ 10 • written 5.5 years ago by TRASA • 0

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1.8k

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BSgenome getSeq

updated 7.3 years ago by Martin Morgan 25k • written 7.3 years ago by rubi ▴ 110

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1.5k

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R bsgenome getseq

updated 7.8 years ago by James W. MacDonald 67k • written 7.8 years ago by pm16057 • 0

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5.7k

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dnastringset getseq

updated 8.3 years ago by Hervé Pagès 16k • written 8.3 years ago by TimothéeFlutre ▴ 80

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1.6k

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rtracklayer NA BED getseq

9.0 years ago Dimitris Polychronopoulos ▴ 80

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2.4k

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bsgenome getseq

updated 9.0 years ago by Martin Morgan 25k • written 9.0 years ago by dborgesrmit • 0

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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…

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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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