NAME
kissreads2 - enhances the kissnp2 results by computing per read set
DESCRIPTION
[Kissreads2 options]
- -x
-
(0 arg) : radseq option, homogeneous read depth along the prediction
- -predictions
-
(1 arg) : Input predictions
- -reads
-
(1 arg) : Input reads
- -unco
-
(1 arg) : Output uncoherent file name [default '/dev/null']
- -co
-
(1 arg) : Output coherent file name
- -hamming
-
(1 arg) : Maximal hamming distance authorized while maping [default '1']
- -coverage_file (1 arg) :
-
File (.h5) generated by kissnp2, containing the coverage threshold per read set [default '_removemeplease']
- -k
-
(1 arg) : Size of k, used as minial overlap and kmer spanning read coherence [default '31']
- -index_stride
-
(1 arg) : Index Stride [default '2']
- -size_seeds
-
(1 arg) : Size of the used seeds (distinct from the size of k) [default '25']
- -output_fasta
-
(0 arg) : Output standard Fasta. By default the output is formatted especially for the discoSnp++ pipeline
- -genotype
-
(0 arg) : Compute genotypes
- -nb-cores
-
(1 arg) : number of cores [default '0']
- -verbose
-
(1 arg) : verbosity level [default '1']
- -version
-
(0 arg) : version
- -help
-
(0 arg) : help
AUTHOR
This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.