compileSpliceCands1
Find introns parsing a set of exon candidates in gff format
Usage
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)
Additional documentation
An exhaustive documentation can be found in the file /usr/share/doc/augustus/README.md.gz.
Releases
4 releases since Debian 10 (Buster); the text changed 3 times.