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Because of things like https://github.com/usegalaxy-eu/usegalaxy-eu-tools/issues/103 https://github.com/usegalaxy-eu/usegalaxy-eu-tools/issues/104 was just wondering if it'd be possible to have an aut…
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Details, test history, etc https://github.com/galaxyproject/tools-iuc/issues/2314
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* toil_cnacs version: 0.2.0
* Python version:2.7
* Operating System: Ubuntu 20.04.4 LTS server
### Description
I was trying to generate a pool of normals.
I got an error saying "WARNING:toil.…
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I've noticed that covmed estimates higher median coverage than other tools. For example for a particular whole genome covmed estimates 33.4, while Picard CollectWgsMetrics estimates 27.
I've perform…
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```
using terminal on my mac OS X
followed installation protocol
typed in: curl http://bedtools.google... etc with version 2.17.0
Bedtools.tar.gz appeared on my desktop
I unzipped it
went into the fo…
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Dear Author,
I used filterBam to filter bam files for only high coverage and identity mapped reads. However, for different minCover and minID, I have the same coverage depth using bedtools genomecov …
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I saw several eb's where the first line comment was who created it. E.g.
* https://github.com/easybuilders/easybuild-easyconfigs/blob/da36e3ba4e5d1db770272b59e5e3e2f5159e4b0f/easybuild/easyconfigs/…
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Dear all;
I'm trying to install and launch RetroSeq (using mac os);
When I run the command line: perl retroseq.pl -discover -bam file.bam -out ...
I obtain this msg:
Error: Cant find required binary …
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Hi,
I am new to data analysis, we have been doing CnT for histone modifications and transcription factor. First I used the following alignment parameters:
`--local --very-sensitive-local --no-un…
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Hi,
would it be possible to improve `bedtools` (have v2.29.2 now) to output a line number of line contents where thsi check fails? I just cannot find. Tabs are in there, no trailing '\t\n`.
```…