EHMMTraining Class Reference

etraining executable that determines species-specific parameters More...

Public Member Functions
void	HMMbuildParameters (int gcIdx, AnnoSequence *AnnoSeqList, FeatureCollection &extrinsicFeatures, BaseCount *bc=NULL)
void	CRFbuildParameters (AnnoSequence *AnnoSeqList, FeatureCollection &extrinsicFeatures)
void	deleteModelParameterFiles (const char *suffix=NULL)
void	printParameters (const char *suffix=NULL)
void	saveConfig (const char *file=0)

Static Public Member Functions
static AnnoSequence *	split2SingleGeneSeqs (const AnnoSequence *multiannoseq)

Detailed Description

etraining executable that determines species-specific parameters

Author

Mario Stanke

Emmanouil Stafilarakis

Member Function Documentation

split2SingleGeneSeqs()

AnnoSequence * EHMMTraining::split2SingleGeneSeqs ( const AnnoSequence *  multiannoseq )

static

split2SingleGeneSeqs

The input multiannoseq can be a list of annotated sequences where the sequences contain multiple genes on either strand. For training, I need single gene sequences on the forward strand. this function splits each multi-gene sequence into several single-gene sequences and computes the reverse complement of the sequence and annotation if the gene is on the reverse strand. Prerequisite: The genes are in order and non-overlapping.

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

• src/etraining.cc