Bioconductor Htseqcounts

Showing : htseqcounts • reset

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1.9k

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deseq2 deseq edgeR rnaseq htseqcounts

8.0 years ago Deepali • 0

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2.5k

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edger htseqcounts

updated 8.1 years ago by Gordon Smyth 53k • written 8.1 years ago by Bioinformatics ▴ 30

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2.9k

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R summarizeoverlaps htseqcounts

updated 8.3 years ago by thokall ▴ 160 • written 8.3 years ago by Walter F. Baumann ▴ 10

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htseqcounts edger

updated 3.4 years ago by Randy • 0 • written 8.5 years ago by mictadlo ▴ 10

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edger htseqcounts

updated 8.5 years ago by Gordon Smyth 53k • written 8.5 years ago by mictadlo ▴ 10

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htseqcounts star rnaseq

8.5 years ago Ahdee ▴ 60

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featurecounts SAM htseqcounts

updated 2.6 years ago by Yang Liao ▴ 450 • written 8.8 years ago by courtney.stairs • 0

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chipseq deseq2 htseqcounts

updated 3.0 years ago by mhashan.j ▴ 10 • written 9.0 years ago by JunLVI ▴ 40

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edger htseqcounts rnaseq

updated 9.2 years ago by Aaron Lun ★ 29k • written 9.2 years ago by romsdahl • 0

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dexseq_count dexseq htseqcounts

9.4 years ago as1023 • 0

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deseq2 pca tximportdata htseqcounts

updated 9.6 years ago by Michael Love 43k • written 9.6 years ago by jarod_v6@libero.it ▴ 40

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deseq2 goseq htseqcounts rnaseq plant

updated 9.7 years ago by Gordon Smyth 53k • written 9.7 years ago by Ben Mansfeld • 0

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HTSeq HTSeqCounts Could not find function DEXSeq

updated 9.8 years ago by Martin Morgan 25k • written 9.8 years ago by sakura.nussbaum ▴ 10

13 results • Page 1 of 1

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Comment: Can sample-level weights be used when analysing GSVA scores in limma? by Robert Castelo ★ 3.4k

Hi Gordon, thanks for giving your advice on how to use sample weights with GSVA scores. I have not used so far sample weights with GSVA sco…

Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k

It looks to me that everything is working ok and limpa has done the right thing. You data has a lot of missing values, with the proportion …

Answer: Can sample-level weights be used when analysing GSVA scores in limma? by Gordon Smyth 53k

Yes, you could probably use the voom sample weights for an analysis of the GSVA scores for the same data, although I have never tried it. …

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Erik Wright ▴ 160

You are correct. Thank you for noticing some of this 'pollution' with "_2" suffixes was unnecessary. I posted an updated SILVA classifier …

Comment: Which preprocessing steps are needed before running limpa? by miro165sabo • 0

Hi @gordonsmyth, thank you a lot for very fast and valuable response. I edited the question to provide more details.

Votes

A: The meaning of results produced by the bamQC function implemented in the ATACseq

The meaning of results produced by the bamQC function implemented in the ATACseqQC

A: Reference paper or resource for limma::diffSplice and edgeR::diffSpliceDGE metho

Answer: Which preprocessing steps are needed before running limpa?

Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ?

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Popular Question to Robert Castelo ★ 3.4k