Francesco Beghini
Francesco Beghini
Can I add annotation data from an external FASTA file to the GFF3 like the approach described [here](https://biopython.org/wiki/GFF_Parsing#providing-initial-sequence-records) ?
Thank you for reporting this, if you are willing to add this fix into a PR, I'll approve it.
Hi @grahnavard , Can you upload the files you are trying to merge?
@cirodri1 , can you run separately the bowtie2-build command to see what error has been raised? The error you get when you try to run MetaPhlAn afterwards is raised because...
Can you check if you have the latest version of phylophlan installed? You can create that folder and then run from there phylophlan_write_default_configs.sh
Hi @Maryamtarazkar, Yes, the `add_metadata_tree.py` script is included in the MetaPhlAn conda package and is callable as is from command line. Otherwise, you can use it as standalone by retrieving...
Hi @MrOlm , I've been experiencing the same issue reported by @cusoiv, I tried upgrading Python from 3.8 to 3.10 and running `compare` with `-p 1`, but the outcome is...
Hi @MrOlm , I have 492 IS profiles, while in the log file I see that "1 of 1 scaffolds are in at least 2 samples" and you mentioned sending...
> There are 2 ways of addressing this. You can either divide the groups into random groups (see methods "Strain sharing analysis" here - https://www.biorxiv.org/content/10.1101/2022.03.30.486478v2.full) and/or run genomes 1 at...