• seq2sam: convert single-end or paired-end reads into sam format
• 10x_trim: trim 10x data
• eutls: some algorithms, now has KMP alg

Installation

make 

Description

Usage: seq2sam [options] -1 <FASTA/Q>
Options:
         -o    STR      output file [stdout]
         -1    STR      read1 file
         -2    STR      read2 file
         -r    STR      read group header line such as '@RG\tID:foo\tSM:bar'
         -h             help