glistcompare1
Generate union, intersection or difference of k-mers from two list files
Usage
glistcompare <INPUTLIST1>
<INPUTLIST2>
[OPTIONS]
Options
-v, --version - print version information and exit
-h, --help - print this usage screen and exit
-u, --union - union of input lists
-i, --intersection - intersection of input lists
-d, --difference - difference of input lists
-dd, --double_difference - double difference of input lists
-du, --diff_union - subtract first list from the second and finds difference
-
-mm, --mismatch -
NUMBER - specify number of mismatches (default 0, can be used with
-diffand-ddiff)
-c, --cutoff NUMBER - specify frequency cut-off (default 1)
-o, --outputname STRING - specify output name (default "out")
-r,--ruleSTRING - specify rule how final frequencies are calculated (default, add, subtract, min, max, first, second, 1, 2)-
NOTE: rules min, subtract, first and second can only be used with finding the intersection.
-ss --subset METHOD SIZE - make subset with given method (rand_unique)
--count_only - output count of k-mers instead of k-mers themself
--disable_scouts - disable list read-ahead in background thread
-D - increase debug level
Examples
You could find some usage examples in /usr/share/doc/genometester/README.GenomeTester4.md
Releases
Unchanged in 4 releases since Debian 10 (Buster).