Biostar Bigwig

Showing : bigwig • reset

votes

306

views

DESeq2 edgeR bigwig limma

3 months ago • updated 16 days ago Bogdan ▴ 660

votes

replies

442

views

bedgraph wiggleplotr bigwig wig

updated 5 months ago by complaintguide • 0 • written 5 months ago by Bogdan ▴ 660

votes

543

views

bigWig RNASeqData

12 months ago bas_work ▴ 10

votes

replies

957

views

software error BigWig import windows

2.9 years ago • updated 2.8 years ago lsilva.m • 0

votes

1.0k

views

wiggleplotr bigwig coverage ngs

updated 5.3 years ago by kaur.alasoo ▴ 30 • written 5.3 years ago by borgmichael • 0

votes

replies

1.9k

views

bigwig rtracklayer import granges grangeslist

updated 5.5 years ago by Michael Lawrence 11k • written 5.5 years ago by Assa Yeroslaviz ★ 1.5k

votes

841

views

rtracklayer bigwig import

updated 6.2 years ago by Michael Lawrence 11k • written 6.2 years ago by zx8754 ▴ 10

votes

replies

948

views

bigwig rtracklayer export.bw

updated 6.3 years ago by Michael Lawrence 11k • written 6.3 years ago by story.benjamin ▴ 20

votes

replies

1.6k

views

rtracklayer bigwig

updated 7.0 years ago by laurent.lacroix ▴ 30 • written 7.0 years ago by koneill ▴ 30

votes

replies

854

views

rtracklayer BigWig

updated 7.2 years ago by Michael Lawrence 11k • written 7.2 years ago by dborgesrmit • 0

10 results • Page 1 of 1

Recent ...

Replies

Comment: mas5calls function doesn't work; mirna40cdf problem by Berna • 0

Thanks for all answers. I have tried, but still get an error message. Do you know how I can work around this? > library(pd.mir…

Answer: struggling to create a heatmap by ATpoint ★ 2.1k

I am reluctant to read through that wall of code. Here is what would work. Note that prefiltering makes sense before, not after running `DE…

Answer: collapseReplicates error after tximeta by Michael Love 39k

The issue is that `collapseReplicates` just collapses `counts` and doesn't account for multiple assays which you need for e.g. Swish or oth…

Comment: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it by ATpoint ★ 2.1k

That having said, I recommend to inspect the MA-plots (`plotMA()`), at best the ones produced right from `res <- results(dds); plotMA(res)`…

Answer: Which genes are outliers in DESeq2? by ATpoint ★ 2.1k

You can take over some of the lines from `results()` to find them easily: ```r suppressPackageStartupMessages(library(DESeq2)) set.s…

Votes

Significant reporter activity with mpralm function

Answer: I cannot install annotables package in Rstudio (macOS)

Answer: log2 of normalized counts for further analyzes

Answer: Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it

Clarification of what DESeq2::estimateSizeFactors controlGenes does and when it should *not* be used

Awards • All

Commentator to Lucia ▴ 40