Biostar Factor

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166

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factor DESeq2 MultipleComparison

updated 6 months ago by swbarnes2 ★ 1.0k • written 6 months ago by diegocastano182 • 0

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215

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Factor Levels Dispersionestimates DESeq2

6 months ago rafaelsolersanblas ▴ 50

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570

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deseq2 levels factor colData

updated 3.2 years ago by Michael Love 36k • written 3.2 years ago by ariel ▴ 10

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958

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genomicranges RaggedExperiment coercion logical factor

updated 4.5 years ago by Marcel Ramos 570 • written 4.5 years ago by Taran • 0

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2.3k

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deseq2 deseq factor rnaseq

updated 4.8 years ago by Peter Langfelder ★ 2.6k • written 4.8 years ago by sup230 ▴ 30

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984

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genomicranges seqnames factor

5.6 years ago wcstcyx ▴ 30

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521

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R overrrepresentation factor variable factor enrichment

5.6 years ago IOM ▴ 20

7 results • Page 1 of 1

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Comment: Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0 by Yang Shi • 0

Perfect answer! This questions troubled me for a long time. Thanks again and for your quick and detailed reply.

Comment: HTSeq Counts no longer available by swbarnes2 ★ 1.0k

STAR's output was intended to mimic HTseq-counts.

Answer: Methods for removing unexpressed probes of Human Transcriptome Array HTA 2.0 by James W. MacDonald 59k

In the previous post I noted that `paCalls` doesn't exist for this array, and that is still true today. And there are no methods similar to…

Comment: DiffBind GreyListChIP error: Error: BiocParallel errors by Rory Stark ★ 4.4k

Could you let me know the versions? Output of `sessionInfo()`.

Comment: Appropriate pre-processing pipeline for Human Transcriptome Array HTA 2.0 with o by Yang Shi • 0

okay sir, the new post is here (https://support.bioconductor.org/p/9144266/). Looking forward to your reply.

Votes

Answer: Use MulticoreParam under BatchtoolsParam

Answer: Variance explained (coefficient of determination) in edgeR

HTSeq Counts no longer available

Comment: Problem converting transcript to genomic coordinates with Annotation Hub

Comment: Separate exogenous from endogenous transcripts using Salmon RNAseq DTU

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Popular Question to Johannes Rainer ★ 1.9k