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Dear chg60,
I have a problem about the result, I have installed DEPhT by conda, and download the model to server. And then searched prophage on my data, but the result contained .gbk and .csv file o…
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Hi Jason, I'm running into this error when trying to use phylomark: `FileNotFoundError: [Errno 2] No such file or directory: 'distance.txt'` It seems like this error only shows up near the end of the …
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Hi, I'm having some problems to install aTRAM with respect to modules biopython, numpy and psutil. util_check_requirements.py says these modules are missing, but I can see they are installed through p…
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Greetings!
Can your GET_HOMOLOGUES-EST (plants) be used directly for OR simply adapted for the additional purpose of reporting lineage specific genes, not just pan genome analyses?
And would t…
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Dear Torsten and all other readers,
thank you for that great piece of software. I made a cryptic execution time observation when running conda/mlst on a SLURM compute node. On the compute node, wh…
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Hello ONTrack developer-
I have successfully ran ONTrack on my dataset, but I want to add the **_'percent identity(%)_**' to my BLAST search results generated by ONTrack. Is there a specific …
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Hello Mike,
I'm using Cenote-Taker2 to discover viral elements in my samples. I'm really glad that there are lots of viral genes are identified but I have two questions and hope to have you suggest…
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On running:
`python ~/apps/CenoteTaker2/run_cenote-taker2.py -c $S.scaffolds.fasta --srr_number $S --known_strains blast_knowns --blastn_db /data/BLAST_databases/nt --reads1 $S/$S.trim.1.fq.gz --r…
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Hello, I have a question about the command "_cluster_makeHomolog.pl".
So, I'm still working with my 421 samples. Now the "_cluster_makeOrthologes.pl" command works as expected, for which the dryrun.…
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Hi @davised
I am having a strange issue. I took a set of marker genes from a specific genome and then I used them as query in a collection of three genomes (one of those genomes is the one I took …