samhunter
commented
11 years ago bowtie2 works with fasta: -f query input files are (multi-)FASTA .fa/.mfa
The mapper code has been updated to add this switch if the format is fasta.
Closed msettles closed 11 years ago
samhunter
commented
11 years ago bowtie2 works with fasta: -f query input files are (multi-)FASTA .fa/.mfa
The mapper code has been updated to add this switch if the format is fasta.
Bowtie2 does not work with fasta files as input, must use either blat in this case, or we could produce bogus qualities and generate a fastq. Should check however if using format=fasta, then must use blat