SpeciesCollection holds all extrinsic evidence given for the species. More...

#include <randseqaccess.hh>

Public Member Functions
FeatureCollection *	getFeatureCollection (string speciesname)

int	getGroupID (string speciesname)

void	addSpeciesToGroup (string skey, int groupID)

bool	withEvidence (string speciesname)

void	readGFFFile (const char *filename)

void	readExtrinsicCFGFile (vector< string > &speciesNames)

Detailed Description

SpeciesCollection holds all extrinsic evidence given for the species.

It consists of a set of group specific FeatureCollections and a default FeatureCollection. Species for which no extrinsic evidence is given, make use of the default collection (identical to ab initio gene prediction, no bonus/malus). Subsets of the species with the same extrinsic config, i.e. same feature table in the extrinsicCfgFile, share one group specific FeatureCollection.

Author: Stefanie Koenig

The documentation for this class was generated from the following files:

include/randseqaccess.hh
src/randseqaccess.cc

Public Member Functions

Detailed Description