Jacques Dainat
I have been swamped. Thank you for remembering me. I have now fixed it. I need to update plenty of related tests. It should be soon ready and merged in...
You can try branch 457. It will be available in the next release (I didn't plan any soon...)
Hi, thank you for your feedback. Are the other gene locations correct ?
I’m quite sure this will be the kind of package not accepted by bioconda. The best is to evolve your code to accept the version provided by conda-forge or to...
Check manually the reported cases to see if location in the gff is really out of the corresponding sequence size of the fasta file.
Use grep or awk to extract the features from SVA1_S1_L008_001_contig_737055 sequence. Then Check the higher position value.
It might depending how you merged the different annotation, because same gene name may have been used in the different files. In that case AGAT may have messed up the...
To avoid issue related to shared names between file you can use the agat script for the purpose. It will handle names and updates then on the fly to become...
No idea, this is strange. Did you try by removing the index and re-run ?