This PR adds the ability to provide precomputed protein sequences as input, eliminating the need for Binette to perform gene prediction. This feature addresses the request in issue #30.
Usage
A new argument, --proteins, has been introduced. This should point to a FASTA file containing all predicted proteins for the assembly.
Requirements
The provided protein sequences must follow Pyrodigal’s naming convention: <contigID>_<GeneID>.
<contigID>: The name of the contig.
<GeneID>: An integer identifying the gene.
If a contig extracted from the protein file is not present in the provided contig file, the program will raise an error to ensure consistency between inputs.
This PR adds the ability to provide precomputed protein sequences as input, eliminating the need for Binette to perform gene prediction. This feature addresses the request in issue #30.
Usage
A new argument,
--proteins, has been introduced. This should point to a FASTA file containing all predicted proteins for the assembly.Requirements
The provided protein sequences must follow Pyrodigal’s naming convention:
<contigID>_<GeneID>.<contigID>: The name of the contig.<GeneID>: An integer identifying the gene.If a contig extracted from the protein file is not present in the provided contig file, the program will raise an error to ensure consistency between inputs.