thackl / mbc-prime

Find group-specific primer binding sites for amplicon metabarcoding

Usage

# download workflow
git clone https://github.com/thackl/mbc-prime

mbc-prime -h                          # show help
mbc-prime [options] -t INT <msa.fa>   # run tool

Input

msa.fa

multiple-sequence alignment of region of interest with target group sequences at the top and sequences to exclude at the bottom.

Output

TODO…

The pipeline produces the following final files in results/:

<sample_id>_classified.tsv

tab-separated file with one line per classified query with the fields: query_id, query_tophit_identity, query_tophit_coverage, query_tophits_consensus_lineage