seqSight Database

Download the databases

Downloading the databases is a required step if your input is a filtered shotgun sequencing metagenome file (fastq, fastq.gz, fasta, or fasta.gz format) and you don't have your own reference database.

---

Download the Reference database

seqSight_database --download <database> <build> <install_location>

NOTE: The seqSight config file will be updated to point to this location for the default database. If you move this database, please use the "seqSight_config" command to update the default location of this database.

seqSight_database --download <database> <build> <install_location> --update-config yes

Available databases

seqSight_database --available

Databases	build	location
BGC	MIBiG	https://gwu.box.com/shared/static/s9g2v012kyy97p50juy4boybeojrfhda.gz
fungi	fungiFasta	https://gwu.box.com/shared/static/oaah1cv3ujdrirc9b3yoovqok6k8nyw9.gz
fungi	fungiBt2	https://gwu.box.com/shared/static/oaah1cv3ujdrirc9b3yoovqok6k8nyw9.gz
human	GRCh38Fasta	https://github.com/omicsEye/seqSight/blob/main/data/testTar.tar.gz?raw=true
human	GRCh38Bt2	https://github.com/omicsEye/seqSight/blob/main/data/testTar.tar.gz?raw=true
human	T2T-CHM13Fasta	https://github.com/omicsEye/seqSight/blob/main/data/testTar.tar.gz?raw=true
human	T2T-CHM13Bt2	https://github.com/omicsEye/seqSight/blob/main/data/testTar.tar.gz?raw=true
viral	viralFasta	https://github.com/omicsEye/seqSight/blob/main/data/testTar.tar.gz?raw=true
viral	viralBt2	https://github.com/omicsEye/seqSight/blob/main/data/testTar.tar.gz?raw=true
bacterial	bacterialFasta
bacterial	bacterialBt2
archaeal	archaealFasta	https://gwu.box.com/shared/static/l4wcu0z3nz4lsd222i64ii2miam2ordb.gz
archaeal	archaealBt2	https://gwu.box.com/shared/static/l4wcu0z3nz4lsd222i64ii2miam2ordb.gz