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**Describe the issue:**
I am observing some weird genotypes calls, when I call variants from RNA-seq data. I've followed the nicely written tutorial, the only thing I changed was a minimum coverage o…
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I ended up with this error message after using Maker in the Main Galaxy instance:
```
Possible unintended interpolation of @2 in string at /cvmfs/main.galaxyproject.org/deps/_conda/envs/__maker@2.…
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Dear Daniel,
Thanks for your help, I have successfully converted the format of NCBI.
I already have the RMRBSeqs.embl file that RepeatMasker needs, but how do I get the file corresponding to the --…
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Hi all,
Thanks so much for generating this useful pipeline!
I wanted to find circrnas in a different way, and I found your work. But when I use it, I encounter the following problems:
**Here is…
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Hi,Professor,thank you for developing this pileline for annotation of TEs. Recently, I used this pileline to annotate a genome of arthropod. My genome size was 2.7Gb. After it runned more than 27 hou…
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### Description of the bug
Dear All,
I am running sarek v 3.0.2, command as pasted below.
Seems like is not finding the referene genome.
Could you please assist me?
Best
here is my output…
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**Describe the issue**
I mask the simple repeat in some genome. I have tried to use larger memory and less thread, but not helpful.
**Reproduction steps**
1. Steps to reproduce the behavior…
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Thanks for the tip, I ended up removing the "--contain" flag altogether, since it always seemed to insist on going to the $TMPDIR path whatever I tried to bind. That worked, however, now the p…
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* link to support ticket: ...
* website: https://github.com/Yandell-Lab/maker
* installation docs: ...
* toolchain: `2022a`
* easyblock to use: `...`
* required dependencies:
* [x] bioperl
…
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I'm using RepeatMasker to serially mask my genome assembly with different libraries. First soft masked simple repeats. Then hard masked the output with Tetrapod elements from Repbase and this output i…