seqmule-download downloads reference genomes, index files, capture region definitions and other databases.
seqmule download <options>
This command downloads specific database files used in analysis, including but not limited to, reference genomes, index for reference, dbSNP database, 1000G indel database, capture region definitions from various manufacturers.
--down,-d comma-delimited list of databases and BED files by capture kit manufacturer. See details. --downdir <dir> custom download folder. NOT recommended if you want to use default databases. -v,--verbose verbose output. Default: disabled -h,--help help --noclean do not clean temporary files --debug debug mode
#download all hg19 databases/BEDs to default location (under installation directory) seqmule download -down hg19all #same as above, but saved at custom location seqmule download -down hg19all -downdir /home/user/database
The following list gives possible options and their corresponding databases. You can use 'hg19all','hg18all','all' to download all databases corresponding to a specific genome build or all databases. Default location for databases is 'installation_directory/database/'.