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I have the following results from AmrFinderPlus by passing `--name`.
```
--name NAME
Text to be added as the first column "name" to all rows of the report, for example it can be an assembly n…
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Hello,
I ran the tool on a FASTA file representing a genome which contains many different contigs. I used `python Promotech-master/promotech.py -g -i results/ -o results/` to generate the final res…
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I am aligning nucleotide sequences, but veryfasttree doesn't recognize it. it ignores all a t g c n characters... What to do?
veryfasttree -nt test.aln > test.nwk
Command: veryfasttree -nt test.al…
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Dears,
Along with greeting you, I am trying to run the software. However, I cannot find the taxa file needed.
the description says:
```
-l File containing the taxa of input nucleotide sequences. …
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Hi,
I use vclust script to classify viruses into species and genera following ICTV standards.
The script of assigning viruses into putative species (tANI ≥ 95%) is:
`vclust cluster -i ani.tsv -o …
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Hi, I really love using ape and have been using lots of the functions for calculating distance between sequences; thank you for this.
I've noticed the nucleotide substitution models that include nucl…
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We have download many metagenome fastq files and need to align them to a custom protein database for calculating CPMs. We use 'kaliisto index --aa' command to build index from our FASTA-file contain…
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Hi, hope someone can help me.
I have a problem with the construction of an AAI Matrix. When i run compareM, Ubuntu returns me this message "No genomes found in directory: input_AAI. Check the --file…
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`07:33:21 INFO call_loculus.py:approve - Config: Config(organism='rsv-b', backend_url='http://backend:8079', keycloak_token_url='http://keycloak:8080/realms/loculus/protocol/openid-connect/token',…
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Hi, I tried to use bindash to process my fasta data. I first used the following command:
./bindash sketch mydata.fas --outfname=genomeA.sketch
The mydata.fas file size is about 50M, containing more …