Bioconductor BigWig

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1.9k

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DESeq2 edgeR bigwig limma

2.1 years ago • updated 22 months ago Bogdan ▴ 670

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2.1k

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bedgraph wiggleplotr bigwig wig

updated 2.2 years ago by complaintguide • 0 • written 2.2 years ago by Bogdan ▴ 670

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1.7k

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bigWig RNASeqData

2.8 years ago bas_work ▴ 30

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2.0k

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software error BigWig import windows

4.7 years ago • updated 4.6 years ago lsilva.m • 0

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2.1k

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wiggleplotr bigwig coverage ngs

updated 7.1 years ago by kaur.alasoo ▴ 30 • written 7.1 years ago by borgmichael • 0

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3.4k

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bigwig rtracklayer import granges grangeslist

updated 7.3 years ago by Michael Lawrence ★ 11k • written 7.3 years ago by Assa Yeroslaviz ★ 1.5k

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1.3k

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rtracklayer bigwig import

updated 8.0 years ago by Michael Lawrence ★ 11k • written 8.0 years ago by zx8754 ▴ 10

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1.5k

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bigwig rtracklayer export.bw

updated 8.1 years ago by Michael Lawrence ★ 11k • written 8.1 years ago by story.benjamin ▴ 20

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2.6k

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rtracklayer bigwig

updated 8.8 years ago by laurent.lacroix ▴ 30 • written 8.8 years ago by koneill ▴ 30

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1.4k

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rtracklayer BigWig

updated 9.0 years ago by Michael Lawrence ★ 11k • written 9.0 years ago by dborgesrmit • 0

10 results • Page 1 of 1

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Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k

You will probably have to ask the Signac people. I don't know exactly what is going on under the hood for `AddMotif`, but the `EnsDb` seems…

Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by Paul • 0

Unfortunately I've updated my code with the newest GRCm39 genome, and yet I am still getting the same error.... Is there anything else I ca…

Comment: WGCNA with TPM tables by ATpoint ★ 4.5k

WGCNA is not a Bioconductor package, but generally: If you want to do serious analysis then find the raw data. There is no guarantee what …

Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k

The `EnsDb.Mmusculus.v79` package is mm38, not mm39. If you want a current `EnsDb`, use `AnnotationHub` ``` > library(AnnotationHub) >…

Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k

I'm adding my comment to the threaded section ... I don't have any suggestions here but whatever method you're using is not appropriate up…

Votes

Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (

Comment: does anyone how to create rarefaction curves from a phyloseq object?

Answer: ANOVA like approach of edgeR

A: ANOVA-like test with edgeR

Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data

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