Bioconductor Htseqcounts

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1.5k

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deseq2 deseq edgeR rnaseq htseqcounts

6.9 years ago Deepali • 0

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2.1k

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edger htseqcounts

updated 6.9 years ago by Gordon Smyth 52k • written 6.9 years ago by Bioinformatics ▴ 30

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2.4k

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R summarizeoverlaps htseqcounts

updated 7.1 years ago by thokall ▴ 160 • written 7.1 years ago by Walter F. Baumann ▴ 10

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4.8k

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htseqcounts edger

updated 2.2 years ago by Randy • 0 • written 7.3 years ago by mictadlo ▴ 10

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3.6k

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edger htseqcounts

updated 7.3 years ago by Gordon Smyth 52k • written 7.3 years ago by mictadlo ▴ 10

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1.3k

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htseqcounts star rnaseq

7.3 years ago Ahdee ▴ 50

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2.6k

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featurecounts SAM htseqcounts

updated 17 months ago by Yang Liao ▴ 450 • written 7.6 years ago by courtney.stairs • 0

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3.8k

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chipseq deseq2 htseqcounts

updated 22 months ago by mhashan.j ▴ 10 • written 7.8 years ago by JunLVI ▴ 40

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1.2k

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edger htseqcounts rnaseq

updated 8.0 years ago by Aaron Lun ★ 28k • written 8.0 years ago by romsdahl • 0

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1.2k

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dexseq_count dexseq htseqcounts

8.3 years ago as1023 • 0

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1.9k

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deseq2 pca tximportdata htseqcounts

updated 8.5 years ago by Michael Love 43k • written 8.5 years ago by jarod_v6@libero.it ▴ 40

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deseq2 goseq htseqcounts rnaseq plant

updated 8.6 years ago by Gordon Smyth 52k • written 8.6 years ago by Ben Mansfeld • 0

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HTSeq HTSeqCounts Could not find function DEXSeq

updated 8.7 years ago by Martin Morgan 25k • written 8.7 years ago by sakura.nussbaum ▴ 10

13 results • Page 1 of 1

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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40

Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …

Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Votes

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

A: Using RSEM reads for DESeq2

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