Difference between revisions of "Public Chado Databases"
(→Direct Chado Access: Add GeneDB details) |
(New shorter database hostname for GeneDB) |
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pg_dump -f mychado.dump mychado | pg_dump -f mychado.dump mychado | ||
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== Direct [[Chado]] Access == | == Direct [[Chado]] Access == | ||
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The following connection information is for the preliminary GeneDB Chado database. This database currently contains Plasmodium genomes; more organisms will be added during 2008. This is currently a pre-release database, which may change or disappear without warning. | The following connection information is for the preliminary GeneDB Chado database. This database currently contains Plasmodium genomes; more organisms will be added during 2008. This is currently a pre-release database, which may change or disappear without warning. | ||
| − | '''hostname:''' | + | '''hostname:''' db.genedb.org<br /> |
'''port:''' 5432<br /> | '''port:''' 5432<br /> | ||
'''username:''' genedb_ro<br /> | '''username:''' genedb_ro<br /> | ||
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e.g. | e.g. | ||
| − | psql -h | + | psql -h db.genedb.org -U genedb_ro snapshot |
| − | [[Category: | + | [[Category:ParameciumDB]] |
[[Category:FlyBase]] | [[Category:FlyBase]] | ||
| + | [[Category:SGD]] | ||
| + | [[Category:Chado]] | ||
Revision as of 10:26, 6 October 2008
Contents
Public Chado Genome Database Releases
Chado PostgreSQL Dumps
These projects provide Chado database dumps that you can copy and learn from.
- FlyBase: ftp://flybase.net/releases/current/psql/ - Contains 12 Drosophila genomes.
- ParameciumDB: http://paramecium.cgm.cnrs-gif.fr/download/sql/
- Yeast: http://sgdlite.princeton.edu/download/sgdlite/
Please add to this list, if you have a Chado database to share, or know of someone who does. If you have a public Chado database, please consider adding an export dump file.
pg_dump -f mychado.dump mychado
Direct Chado Access
FlyBase
The following connection information is for the FlyBase Chado database. The database release available through this access point will always match the version available through our public web interface. Before each release there will be a down time of several hours while the new data is loaded. Please check the FlyBase News Forum for scheduled outages.
hostname: flybase.org
port: 5432
username: flybase
password: no password
database name: flybase
e.g.
psql -h flybase.org -U flybase flybase
GeneDB
The following connection information is for the preliminary GeneDB Chado database. This database currently contains Plasmodium genomes; more organisms will be added during 2008. This is currently a pre-release database, which may change or disappear without warning.
hostname: db.genedb.org
port: 5432
username: genedb_ro
password: no password
database name: snapshot
e.g.
psql -h db.genedb.org -U genedb_ro snapshot
