table of contents
| COMPILESPLICECANDS(1) | COMPILESPLICECANDS(1) |
NAME¶
compileSpliceCands - Find introns parsing a set of exon candidates in GFF formatSYNOPSIS¶
compileSpliceCands -f <splice candidates filename> -g <genome filename>OPTIONS¶
Parameters:¶
-f <filename>potential splice sites in gff format
-g <filename>
genome file in fasta format
-c <integer>
defines the number of potential splice site every
potential splice site itself is compared with
-t <float>
has to be between 0 and 1 and defines how much the
average coverage may differ
-m <integer>
defines how many bases around the splice site should be
checked
-d
enables debugging output
-i <integer>
maximum length an Intron can be, default 500000 (human
genome)