Difference between revisions of "RostDB"

From Rost Lab Open
Line 1: Line 1:
Package to download and postprocess the rost_db databases
+
Package to download and postprocess the rost_db databases. Contact hampt - at rostlab - org if you want to install RostDB at your own lab.
 
<!-- * we do packaging here: svn+ssh://rostlab.informatik.tu-muenchen.de/mnt/project/subversion/slashdata.svn_repo/branches/packaging
 
<!-- * we do packaging here: svn+ssh://rostlab.informatik.tu-muenchen.de/mnt/project/subversion/slashdata.svn_repo/branches/packaging
 
* we will have one makefile, this is extendable! -->
 
* we will have one makefile, this is extendable! -->
Line 15: Line 15:
 
* HSSP
 
* HSSP
 
* DSSP
 
* DSSP
  +
* HHBlits
   
 
== Post-Processing Steps ==
 
== Post-Processing Steps ==
  +
After downloading all database are verioned and mirrored to fast local disks.
  +
Specific update scripts (Rostlab internal):
 
* split_swiss
 
* split_swiss
 
* big
 
* big

Revision as of 01:54, 18 March 2014

Package to download and postprocess the rost_db databases. Contact hampt - at rostlab - org if you want to install RostDB at your own lab.

Databases to download / mirror

We use wget or rsync!

  • Uniprot/Trembl
  • Uniprot/Swiss-Prot
  • PDB
  • Uniref
  • Prints
  • BLOCKS
  • Pfam
  • Gene Ontology
  • HSSP
  • DSSP
  • HHBlits

Post-Processing Steps

After downloading all database are verioned and mirrored to fast local disks. Specific update scripts (Rostlab internal):

  • split_swiss
  • big
  • bigX
  • cluster_upd
  • parseGO
  • pdb_fasta_upd
  • update_db_page