Bioconductor Variance

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2.0k

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limma arrayWeights variance sampleQuality microarray

updated 7.9 years ago by Ryan C. Thompson 7.8k • written 8.0 years ago by svlachavas ▴ 810

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804

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limma treatment variance

updated 3.7 years ago by Gordon Smyth 48k • written 3.7 years ago by ML18 ▴ 10

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1.3k

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pca variance deseq2 gene_id

updated 7.3 years ago by Michael Love 40k • written 7.3 years ago by NMostajo ▴ 10

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1.6k

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supervised edgeR variance RNASeq heatmaps

updated 7 months ago by Gordon Smyth 48k • written 9 months ago by mohammedtoufiq91 ▴ 10

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1.4k

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deseq2 variance lrt differential gene expression

updated 6.5 years ago by Ryan C. Thompson 7.8k • written 6.5 years ago by rclaire ▴ 20

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723

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deseq2 variance genes

updated 5.9 years ago by Michael Love 40k • written 5.9 years ago by hs.lansdell ▴ 20

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1.1k

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variance formula expression

updated 4.7 years ago by mikhael.manurung ▴ 270 • written 4.7 years ago by rina ▴ 20

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662

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deseq2 vst variance

updated 4.3 years ago by Michael Love 40k • written 4.3 years ago by Bitao Qiu • 0

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5.5k

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deseq2 counts DESeqtransform variance deviation

updated 6.0 years ago by Michael Love 40k • written 6.0 years ago by Casper van Mourik • 0

9 results • Page 1 of 1

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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 > …

Comment: Suggested package missing from Development version of Bioconductor by shepherl 3.5k

Is your package in review or already in Bioconductor? Its harder if it is in review because we can't tell that the package has or can build…

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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)

Normalisation of data using DESeq2 with multi-groups

Answer: Normalisation of data using DESeq2 with multi-groups

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