- a protein coding regions annotator that will take the alignment file in the PAF/GFF format and will generate the fasta from the corresponding fasta files for the aligned regions.
- implemented faster rates so that you can parse as many aligned regions as you want.
- you can also create the protein tokenzier from the same for machine learning.
# align your genome with the given protein using the miniprot such as
miniprot --gff genome.fasta protein.fasta > sample.gf
- and then run the proteinannotator to extract all the complete coding regions
generatingAlignments("/home/gaurav/Desktop/final_code_push/multi.gff",
"/home/gaurav/Desktop/final_code_push/multi.fasta",
"/home/gaurav/Desktop/final_code_push/multiout.fasta")
Gaurav
Academic Staff Member
Bioinformatics
Institute for Biochemistry and Biology
University of Potsdam
Potsdam,Germany