Bioconductor StageR

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423

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stageR

updated 23 months ago by Koen Van den Berge ▴ 180 • written 24 months ago by giwa.ao • 0

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671

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DRIMSeq stageR

updated 4.6 years ago by Koen Van den Berge ▴ 180 • written 4.6 years ago by sdvie • 0

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1.4k

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stageR rnaseqDTU DRIMSeq DEXSeq

4.7 years ago d-joester ▴ 20

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995

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limma stageR decideTests

updated 4.7 years ago by Koen Van den Berge ▴ 180 • written 4.7 years ago by maltethodberg ▴ 170

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855

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drimseq rnaseqdtu stager

updated 4.8 years ago by Michael Love 40k • written 4.8 years ago by Jack.Hearn • 0

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1.2k

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DEXSeq StageR rnaseqDTU

updated 4.9 years ago by Michael Love 40k • written 5.0 years ago by rbenel ▴ 30

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1.4k

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drimseq stageR dtu salmon rna seq

updated 5.2 years ago by Koen Van den Berge ▴ 180 • written 5.2 years ago by fiona.dick91 ▴ 60

7 results • Page 1 of 1

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Answer: DiffBind - how to prep the sample matrix when multiple bam files are used by MAC by James W. MacDonald 63k

If you essentially combined multiple BAM files in the MACS call, you could then just combine them using `samtools cat`, in which case you o…

Comment: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq by Michael Love 40k

I can rephrase your question as: Why is number of reads not the superior estimate for the scaling factor (the "m" in rpm). There are som…

Comment: Deseq2 calculated log2foldchange not consistent with RPM in IP-small RNA-seq by Shihui • 0

Hi Michael, Yes I manually calculated the RPMs by dividing each genes RPM to the library read depth. I didn't do any other normalization …

Comment: shinyMethyl - saving the file by dorota.komar • 0

I tried printing the page as pdf, unfortunately I get the same problem. I guess for now, I will need to save the graphs separately :) Than…

Answer: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar by Mike Smith ★ 6.1k

I'll echo James' suggestion to use the GRCh37 mirror. Most mirrors only have a guaranteed lifetime of 5 years from Ensembl, although it se…

Votes

A: Read counts between QSEA and MEDIPs

ComBat_seq function in sva package does not return a matrix

Answer: ComBat_seq function in sva package does not return a matrix

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