Bioconductor DEP

Showing : DEP • reset

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326

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error DEP

7 months ago kcpaul168 • 0

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800

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DEP

updated 6 months ago by Simran • 0 • written 2.5 years ago by hele7 ▴ 20

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1.3k

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Proteomics DEP limma

written 2.2 years ago by barrypraveen • 0

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270

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LFQ DEPpackage run_app('LFQ') ShinyApps DEP

updated 10 weeks ago by Ram ▴ 180 • written 3 months ago by d.kozhevnikova ▴ 10

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223

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LFQ R DEP error

5 months ago aymanreffai • 0

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223

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DEP PrincipalComponent PCA plot_pca

updated 6 months ago by Basti ▴ 720 • written 6 months ago by fuqichen1 • 0

6 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 > …

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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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