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**1. What were you trying to do?**
I have been using FSA to align about 20 de-novo-assembled genomes that are about 1MB long. They are from different individuals in the same species. FSA runs, but …
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**Describe the bug**
VariantValidator provides incorrect HGVS descriptions for intronic variants. E.g.,
- [`NM_001283009.2:c.1266+3_1266+80del`](https://variantvalidator.org/service/validate/?varian…
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Hi Colin,
This is not an issue but a request to update the README with some more examples. For example I would like to see the GC_ContentXY, GC_Content, and a GC_Skew for my genomes. I load the gen…
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kraken2-build --threads 24 --download-library bacteria --db K2_ABPVFP_CG_3_22 &
rsync_from_ncbi.pl: unexpected FTP path (new server?) for https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/900/128/725/GC…
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Running this on a cluster with a virtual env via an interactive session:
Getting this error which kills the job:
Traceback (most recent call last):
File "/home/mcgaughs/drabe004/.conda/envs/…
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When running ArchR with default parameters (threads set to 1) and inputting the ArrowFiles command into the terminal to ascertain whether any ArrowFiles have been created I receive an error: Character…
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I'm working on a relatively big genome (~20Gbp), and I want to create an assembly hic-file that can be used for editing in Juicebox. Previously I have created hic-files for individual chromosomes usin…
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Hello. I'm having trouble running HiC-Pro in the conda environment. I get the above error message when invoking. Any idea what might be the problem?
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Hi,
I am seeing many jobs associated with the TrimAndRecurseOnOutgroups step failing due to lack of memory. I am using Slurm and toil v 3.19.
```
INFO:toil.leader:Issued job 'TrimAndRecurse…
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Hello,
Thank you for this tool. I am attempting to use this to do power calculations for pan-genome GWAS. These are the commands I have run:
python3 ./scripts/annotate_nodes_newick.py --input_…