e-mem(1)
finds position and length of all Maximal Exact Matches (MEMs) for very large genomes
Description
E-MEM
NAME
e-mem - finds position and length of all Maximal Exact Matches (MEMs) for very large genomes
SYNOPSIS
e-mem [options] <reference-file> <query-file>
DESCRIPTION
e-mem finds and outputs the position and length of all maximal exact matches (MEMs) between <query-file> and <reference-file>
OPTIONS
|
-n |
match only the characters a, c, g, or t they can be in upper or in lower case | ||
|
-l |
set the minimum length of a match. The default length is 50 | ||
|
-b |
compute forward and reverse complement matches | ||
|
-r |
only compute reverse complement matches | ||
|
-c |
report the query-position of a reverse complement match relative to the original query sequence | ||
|
-F |
force 4 column output format regardless of the number of reference sequence input | ||
|
-L |
show the length of the query sequences on the header line | ||
|
-d |
set the split size. The default value is 1 | ||
|
-t |
number of threads. The default is 1 thread | ||
|
-h |
show possible options |
AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.