Entering edit mode
5 months ago
SaltedPork ▴ 170
Hi, I have a BAM file from aligning reads to a reference. What I would like is a fasta alignment file for each read showing the alignment between read and reference ie.
Is there a tool/method that I can use that can extract the alignmments from a BAM and show in fasta format.
looks x-post on reddit https://www.reddit.com/r/bioinformatics/comments/107att3/extract_pairwise_alignments_from_sambam_file/