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710

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DESeq2 log2 normalized counts

updated 7 months ago by James W. MacDonald 63k • written 7 months ago by Laia ▴ 10

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1.2k

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Log2 edgeR RNA limma Normalization

10 months ago Sara • 0

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1.8k

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log2 DESeq2

14 months ago User000 • 0

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691

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edgeR RNA-Seq log2 foldchange q_value

updated 20 months ago by Gordon Smyth 48k • written 20 months ago by johndavidgriner74 • 0

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1.4k

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log2 RMA Affymetrix affy Normalization

updated 2.6 years ago by Kevin Blighe 3.8k • written 2.6 years ago by Lara • 0

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1.2k

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normalized counts log2

5.0 years ago agdif ▴ 10

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712

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mfuzz fold change log2 STANDARDISATION

5.3 years ago prakashpandey1111 • 0

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632

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NMF log2 classification bioconductor

5.3 years ago Seymoo • 0

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5.0k

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limma pvalue log2fc log2

updated 10 months ago by James W. MacDonald 63k • written 7.5 years ago by serpalma.v ▴ 60

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2.8k

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limma export log2 data agilent

updated 9.0 years ago by James W. MacDonald 63k • written 9.0 years ago by Jahn Davik ▴ 110

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Answer: Is SeqSQC compatible with hg38? by James W. MacDonald 63k

I'll answer your question with a question. Is there any reason to believe that things like IBD or PCA or Sex checks would be dependent on t…

Comment: using featureCounts (Subread) to count only spliced reads per gene - behavior of by Gregory • 0

Thanks for the prompt response, Gordon. I'm looking for count at the gene level - the gene id is the meta feature, so one row per gene in …

Comment: DiffBind handling of replicates and consensus by Rory Stark ★ 5.0k

You may want to try different values for the `normalize` parameter: dbObj <- dba.normalize(DBA = dbObj, library = "RiP", normalize=DBA…

Comment: DiffBind: dba.plotProfile(profiles) by Rory Stark ★ 5.0k

Yes, setting `raster_quality` down is a good way to address this issue. I've taken to using `raster_quality=1` in general as I think the pl…

Comment: DiffBind: dba.plotProfile(profiles) by Dorien ▴ 10

Not really an answer as I don't know really know why , but I also had the same issue and may have found a workaround ! If I set maxSites > …

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Answer: How do I merge a list of GRanges?

Comment: biomaRt code/getBM function no longer importing 'coding' sequence via seqType ar

Comment: DiffBind: dba.plotProfile(profiles)

Answer: DiffBind - how to prep the sample matrix when multiple bam files are used by MAC

Comment: DiffBind: dba.plotProfile(profiles)

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