bin/clone_filter
bin/count_fixed_catalog_snps.py
bin/cstacks
bin/denovo_map.pl
bin/gstacks
bin/integrate_alignments.py
bin/kmer_filter
bin/phasedstacks
bin/populations
bin/process_radtags
bin/process_shortreads
bin/ref_map.pl
bin/sstacks
bin/stacks-dist-extract
bin/stacks-gdb
bin/stacks-integrate-alignments
bin/tsv2bam
bin/ustacks