@caseywdunn.bsky.social and I have a new tool for "in silico PCR" out in Bioinformatics: 🦈 sharkmer 🦈 With a subsample of raw reads and a few minutes, you can assemble your favorite barcode sequences! Try it out and let us know how we can make it better: github.com/caseywdunn/s...
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Ever wanted to assemble specific genes out of raw sequence reads? Try sharkmer, a tool for in silico PCR (sPCR) developed with @shchurch.bsky.social - academic.oup.com/bioinformati.... Feed it raw reads and primer sequences, it gives you amplicon sequences. Can work on a laptop in minutes.
academic.oup.com
AbstractSummary. We introduce an in silico PCR (sPCR) method for the assembly of specific genomic regions spanned by PCR primers using raw sequence reads.
