Bioconductor Narrowpeaks

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Chipseq DNAseq ATAC bayespeak narrowpeaks

updated 9.5 years ago by Gordon Smyth 52k • written 9.6 years ago by samuel collombet ▴ 140

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Rsubread atac-seq narrowpeaks featurecounts

updated 7.0 years ago by Wei Shi ★ 3.6k • written 7.1 years ago by j.bergenstrahle ▴ 90

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ChIPSeq chipseq NarrowPeaks ChIPSeq chipseq NarrowPeaks

10.6 years ago Robert Chase ▴ 10

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GO DiffBind NarrowPeaks GO DiffBind NarrowPeaks

10.8 years ago Rory Stark ★ 5.2k

4 results • Page 1 of 1

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Comment: Open Sesame: in what genes are my differentially methylated probes!! by alyssa-daniel • 0

@zhouwanding I have a question regarding DML analysis. I understand the Est_ output is describing the difference in methylation between the…

Comment: DESeq2 dispersion estimates fitting drastically different based on explanatory v by Sam • 0

Here is the explanatory variables![enter image description here][1] uses if that helps address the problem as well [1]: /media/images/…

Comment: Merge Replicates vs Mixed Model by abadgerw • 0

Thanks, @gabrielhoffman My understanding is that both options would still be mixed models: Even with technical replicates (3 wells per d…

Comment: Differential Expression Genes as Independent Variables by Dario Strbenac ★ 1.5k

Also, the reason why gene abundance is the dependent variable and is iterated over is that there are far more genes than there are samples …

Comment: rrvgo::calculateSimMatrix() error by Phila • 0

Thanks for sharing the solution. It helps me. [nced cloud][1] [1]: https://my-ncedcloud-login.us/

Votes

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

Transcript-level differential expression using DESeq2

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

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