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Hello,
following this issue:
https://github.com/wheaton5/souporcell/issues/179
minimap is used in souporcell pipeline like:
https://github.com/wheaton5/souporcell/blob/master/souporcell_pipel…
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For testing purposes we need to have two relatively small datasets, with corresponding metadata and contrasts files, to test
- Need one for TempO-Seq (maybe a subset of the PFAS data published by A…
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## Is your feature request related to a problem? Please describe
The docker image doesn't contain singularity. I'd like to use the "download" command to download pipelines with singularity images.
…
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**Are you using the latest release?**
Yes, installed fun annotate via conda (v1.7.4)
**Describe the bug**
While the test run (funannotate test -t all --cpus 12) ran without problem, I run into tr…
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For instance, to be able to take advantage of pre-built bt2 indexes, like those hosted here:
https://benlangmead.github.io/aws-indexes/bowtie
See also [here](https://www.nextflow.io/docs/latest/…
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### Description of the bug
looks like #102 may have had some unintended side effects, although I am not %100 sure that I'm interpreting the situation correctly.
Basically I returned to use the pi…
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Hi everyone,
This is my first time using Cufflinks.
I'm trying to get a fasta corresponding to the RNA-seq from different tissues from D. suzukii. I first used hisat2 in order to align my reads agai…
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Mysteries of kmers: k=21 has divergent pattern from k=31 of the same species.
Using trim-low-abund did not make the pattern disappear, as long as everything ran right. It actually make the values …
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Hello,
I am new to the rampage seq analysis and I am having a few problems. My bed files were generated using rampage_peaks.sh. However, when I run idr on those files I get the following message. I t…
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Hi All,
### Affected tool(s) or class(es)
gatk SplitNCigarReads
### Affected version(s)
Version 4.2.5.0
I'm having a issue with running SplitNCigarReads on my local cluster. When I try to r…