I was wondering about your thoughts on how useful it would be to include here some taxonomic information independent or dependent on the metagenome assembly. I would enjoy having a pipeline that also adds info on the taxa in the genome bins but also of the raw reads.
A tool that I found for taxonomic classification of contigs and metagenome-assembled genomes is CAT/BAT, which might fit quite well into the container.
For giving a taxonomic overview of the relative abundances in the metagenome centrifuge or kaiju might be interesting, both seem to fit from their requirements.
Let me know if you think it would benefit the pipeline to add these analysis steps as an option.
However, from my side I require that you fix the dev branch in a way that the test runs go through before I start working on adding these options.
d4straub
commented
5 years ago
Hi there,
I was wondering about your thoughts on how useful it would be to include here some taxonomic information independent or dependent on the metagenome assembly. I would enjoy having a pipeline that also adds info on the taxa in the genome bins but also of the raw reads.
A tool that I found for taxonomic classification of contigs and metagenome-assembled genomes is CAT/BAT, which might fit quite well into the container.
For giving a taxonomic overview of the relative abundances in the metagenome centrifuge or kaiju might be interesting, both seem to fit from their requirements.
Let me know if you think it would benefit the pipeline to add these analysis steps as an option.
However, from my side I require that you fix the dev branch in a way that the test runs go through before I start working on adding these options.