MICRORAZERS(1)
NAME
MicroRazerS - Rapid Alignment of Small RNA Reads
SYNOPSIS
micro_razers [OPTION]... <GENOME FILE> <READS FILE>
DESCRIPTION
- MicroRazerS - Rapid Alignment of Small RNA Reads
- Main Options:
- -o, --output FILE
change output filename (default <READS FILE>.result)
- -sL, --seed-length NUM
seed length (default 16)
- -sE, --seed-error
allow for one error in the seed (default off)
- -rr, --recognition-rate
set lower bound of sensitivity level for one-error matches (default 100)
- -f, --forward
only compute forward matches
- -r, --reverse
only compute reverse complement matches
- -mN, --match-N
'N' matches with all other characters
- -m, --max-hits NUM
output only NUM of the best hits (default 100)
- -pa, --purge-ambiguous
purge reads with more than max-hits best matches
- -lm, --low-memory
may decrease memory usage at the expense of runtime
- -v, --verbose
verbose mode
- -vv, --vverbose
very verbose mode
- -V, --version
print version number
- -h, --help
print this help
- Output Format Options:
- -a, --alignment
dump the alignment for each match
- -gn, --genome-naming NUM
select how genomes are named 0 = use Fasta id (default) 1 = enumerate beginning with 1
- -rn, --read-naming NUM
select how reads are named 0 = use Fasta id (default) 1 = enumerate beginning with 1 2 = use the read sequence (only for short reads!)
- -so, --sort-order NUM
select how matches are sorted 0 = 1. read number, 2. genome position (default) 1 = 1. genome position, 2. read number
- -pf, --position-format
0 = gap space (default) 1 = position space
AUTHOR
MicroRazerSwas written by Anne-Katrin Emde.
- This manual page was generated using html2man and polished by Soeren
Sonnenburg <sonne@debian.org>, for the Debian project (but may be used
by others).