SLiMSuite REST Server


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SLiMSuite Documentation

Please note that command documentation sometimes lags behind the latest module versions. Click on module names to check current documentation.

cmd: searchdb

Option Type: FILE

Modules: revert rje_hmm_V2 rje_hmm_V1 budapest comparimotif_V3 fiesta gablam presto_V5


ModuleOptionDescriptionDefault
budapest searchdb=FILE Fasta file for GABLAM search of EST translations None
comparimotif_V3 searchdb=FILE (Optional) second motif file to compare. Will compare to self if none given. None
fiesta searchdb=FILE Fasta file for GABLAM search of EST translations None
gablam searchdb=FILE Database to search. By default, same as seqin
presto_V5 searchdb=FILE Protein Fasta file to search (or second motif file to compare) None
revert searchdb=FILE Fasta file of viral (& host?) proteins for assembly annotation. Use viral proteins if None.
rje_hmm_V1 searchdb=FILE Fasta file to search with HMMs None
rje_hmm_V2 searchdb=FILE Fasta file to search with HMMs None

© 2015 RJ Edwards. Contact: richard.edwards@unsw.edu.au.