Bioconductor Genes

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2.4k

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deseq2 wald lrt genes significance

updated 7.3 years ago by Michael Love 40k • written 7.3 years ago by aziza ▴ 20

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2.1k

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heatmap rownames genes

8.0 years ago johnlee.johnson • 0

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1.0k

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datasets genes gene expression

updated 8.1 years ago by Steve Lianoglou 13k • written 8.1 years ago by vavecilla • 0

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946

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cnv genes genomic ranges splitByOverlap

updated 6.5 years ago by Martin Morgan 25k • written 6.5 years ago by julrodr80 ▴ 30

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933

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edger differential expression genes fold change

updated 4.3 years ago by Aaron Lun ★ 28k • written 4.3 years ago by ilovesuperheroes1993 • 0

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896

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topGO significant enrichment genes IDs

4.7 years ago David ROUX ▴ 20

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725

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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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617

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deseq2 genes

updated 7.2 years ago by Michael Love 40k • written 7.2 years ago by silviajserrano • 0

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550

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deseq2 genes expression

updated 4.5 years ago by Michael Love 40k • written 4.5 years ago by UserAnonyme • 0

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494

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GeneSetEnrichment genes genetogo

updated 15 months ago by Basti ▴ 720 • written 15 months ago by Noy • 0

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488

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R microRNA genes binding Site

4.2 years ago pengu447 • 0

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301

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DESeq2 genes Differential expressed

4 months ago Syed Zaheer ▴ 10

12 results • Page 1 of 1

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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 > …

Votes

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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