Daan Speth
Daan Speth
## Short description of the problem anvi-run-hmms silently fails when multithreaded, and run on a single (or low number of) contigs ## anvi'o version ``` Anvi'o .......................................: hope (v7) Profile...
## The need exporting sequences annotated by KEGG/PFAM/COG/FutureAwesomeAnnotators is a useful thing. Currently there are roundabout ways of doing this, but `anvi-get-sequences-for-functions` would be a direct route ## The solution...
## The need anvi'o uses DIAMOND in many cool functionalities, and offers selection of fast and sensitive modes. According to the recent publication on the updated version of DIAMOND (https://www.nature.com/articles/s41592-021-01101-x)...
## Solution The problem is due to a bug in HMMER `v3.3.1`. If you downgrade it the following way, the error will be resolved: ``` conda install -c bioconda hmmer=3.2.1...
## The need thanks for `anvi-estimate-metabolism` @ivagljiva! I really enjoy how well it works with `anvi-compute-enriched-functions`. My suggestion (and i know I wasn't the first ;-) ) to make it...
### the issue in my hands, diamond blastx doesn't always return the highest scoring hit with the `-k 1` flag set. ### background When using DIAMOND for searching illumina read...
Hi! not really an issue, but putting this here in case the original author doesn't have time to modify the ```cdd2cog.pl``` script for use with the updated COG20 database. I...
## The need Currently, when exporting gene/protein fasta files from genomes using `anvi-get-sequences-for-gene-calls`, the identifiers are just numbers, whereas in the GFF export the IDs are in the format ___....