Author: Gene Myers
First: Sept 30, 2025
Release v0.5: Oct. 18, 2025
Once a production version is developed a proper description of FasTAN will be found here.
FasTAN [-vM] [-T(8)] <source:path>[<fa_extn>|<1_extn>|.1gdb] <target>[.1aln]
<fa_extn> = (.fa|.fna|.fasta)[.gz]
<1_extn> = any valid 1-code sequence file type
-v: Verbose mode, output statistics as proceed.
-T: Number of threads to use.
-M: Make a .1ano mask of the hits found.
FasTAN takes a FASTA or 1GDB as input and outputs the off-diagonal alignment delimiting tandem repeats and their period as a .1aln file. If the -M option is set then FasTAN further produces a .1ano file with the same root as the .1aln file, that contains the intervals spanned by the alignments. For details on a .1aln and .1ano files and how to convert the former to PAF or PSL format, see the repo FASTGA.