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I am trying to create a custom track for the WashU EpiGenome browser (instructions here: http://washugb.blogspot.com/2012/09/generate-tabix-files-from-bigwig-files.html), so I am using a bedgraph file…
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Hi, a colleague of mine performed a differential compartment analysis between a CRISPRi and scrambled control experiment using dcHiC. He provided me with a bedgraph file for the full compartment detai…
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Hi all,
I've converted the mapability `bigWig` files to `bedGraph` format to prepare them for liftover to h38 and I'm doing some manual sanity checks to make sure I converted them properly. They do…
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Support bedGraph output in only-depth:
This is basically `perbase -z` output without header and chromosomes sorted by lexographically.
This would allow to create bigwig files relatively easily. …
ghuls updated
2 years ago
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I'm running bedtools v2.23 and trying to use unionbedg but keeps on running into this error:
bedtools unionbedg -i N25sort.bedgraph T25sort.bedgraph > merge_25.bedgraph
bedtools: unionBedGraphs.cpp:…
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Howdy
I was working through the example, and when I got to the following code snippet
```
# get coverage of 5’ positions of the plus strand
bedtools genomecov -5 -bg -strand + \
-g hg…
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In GitLab by @magr0763 on Sep 28, 2018, 09:42
I performed different iterations of FStitch train using the following bedGraph formats GC uncorrected and corrected on a single sample:
1) bedtools stan…
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Hello,
I am interested in generating signals, and as I understand to do that I need to have files in bedGraph format. I understand that to generate bedGraph files I need to call callpeaks, however, I…
ghost updated
8 years ago
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For bedgraph files:
Bedgraph files when loaded give the following error:
**Could not load resource: IGV has not been initialized error on loading a bedgraph file.**
When gzipped, this error goes away…
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**Snakemake version**
7.31.0
**Describe the bug**
Take 3 rules (none set threads or resources unless noted):
- Rule 1 outputs using `pipe()`
- Rule 2 consumes the pipe from rule 1, sets `re…