NAME
track_hub_constructor.pl - Build UCSC genome browser Track Hubs from genomic sequence and annotation
SYNOPSIS
track_hub_constructor.pl [--gi ID] [--infolder PATH] [--out PATH] [--baseurl -URL] [options]
DESCRIPTION
The UCSC genome browser offers the possibility to visualize additional tracks for organisms that are included in the standard UCSC browser bundle via so called 'Track Hubs'. This script constructs Track Hubs from annotation data.
OPTIONS
- --gi -g
-
Genome id as used in UCSC assembly hub. Must be correct, otherwise the annotation cannot be mapped on the genome.
- --infolder -i
-
Directory which contains all track files in BED/bigBed format. The resulting Track Hub will contain these files in their respective bigFile version.
- --out -o
-
Destination folder for the output Track Hub.
- --baseurl -b
-
BaseURL used within the Track Hub. This URL will be included verbatim in the resulting Track Hub. It is crucial that this URl is valid, else the resulting Track Hub will be broken.
- --help -h
-
Print short help.
- --man
-
Prints the manual page and exits.
SEE ALSO
The UCSC Genome Wiki has extensive documentation for Assembly and Track Hubs.