tales of adventures and misadventures in bioinformatics
Wednesday, 23 January 2013
Inferring transcript sequences from a gff file
Have you ever been given a gff file of gene predictions, but wanted to infer the transcript sequences (ie. the DNA sequences that would be translated into protein sequences) for the genes? I've written a perl script get_spliced_transcripts_from_gff.pl that does this, based on an input gff file of gene predictions, and an input fasta file of chromosome/scaffold sequences.