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Hi,
I am using your software against some Klebsiella isolates I am working with and I am a bit confused with my results. Let me explain:
In my output file I have a Estimated bacteria isolate med…
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Hi,
When running "CAT contigs" I get this error:
`No such file or directory
Error: Error reading file /CAT_outout_directory/diamond-tmp-J1k18Q
terminate called after throwing an instance of '…
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Usage: BackBLAST.py
Query and subject BLAST DB are straight forward, but what is the queryGeneList.faa?
If I have about 100 protein *.faa files in my query, would "queryGeneList.faa" be a …
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I was wondering, if it is possible to get the remaining 30 marker genes of mOTU_version2?
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My last few runs have all ended with multiple “completed permanentFail” messages and “docker exited with rc = 1” and yet all the output files were created. The timestamps on the output files indicate…
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I will start with a simple case: compact de Bruijng graph (cDBG). We can construct a cDBG for GRCh38 and keep chromosome paths (more exactly walks). This is a lossless representation of GRCh38, but wi…
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**Describe the bug**
Running bacterial genomes in AS5 -RC1 results in unexpected termination due to a bug in the lassopeptide prediction code.
**Expected behavior**
A clear and concise descripti…
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I use git clone to download run_dbcan. But I don't know how to set the database path in run_dbcan.py. I run it with error.
`db/ ERROR: The database directory does not exist`
Could you help me?
Th…
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Hello,
I am trying to run the following command:
`gtdbtk classify_wf --cpus 13 --batchfile MAG_paths.txt --out_dir gtdbtk_output`
to assign taxonomy to a group of MAGs.
However, the process a…
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Hello,
I am working with a list of 20 closely related bacterial genomes. I analyze them with get_homologues.pl with both orthoMCL and COG triangles, and then run compare_clusters.pl to obtain a pa…