Enter your search terms GNU-Darwin Web Submit search form

gnRNASequence Member List This is the complete list of members for gnRNASequence, including all inherited members. addFeature(gnBaseFeature *feature) [inline, virtual] addHeader(const uint32 contigI, gnBaseHeader *header, const uint32 headerI) [virtual] append(const gnSequence &seq) [inline, virtual] assign(gnSequence &seq) [inline, virtual] Clone() const [virtual] comparator [private] compare(const gnSequence &seq) const [virtual] compare(const string &str) const [virtual] contig(const uint32 contigI) const contigByBase(const gnSeqI baseI) const contigByName(string &contigName) const [virtual] contigIndexByBase(const gnSeqI baseI) const contigIndexByName(string &contigName) const [virtual] contigLength(const uint32 contigI) const [virtual] contigListLength() const contigListSize() const contigName(const uint32 contigI) const [virtual] contigStart(const uint32 contigI) const [virtual] erase(const gnSeqI offset=0, const gnSeqI length=GNSEQI_END) [virtual] filter_list [private] find(const gnSequence &search, const gnSeqI offset=0) const [virtual] getBrokenFeatures(const gnLocation &lt, vector< gnBaseFeature *> &feature_vector) const [inline, virtual] getContainedFeatures(const gnLocation &lt, vector< gnBaseFeature *> &feature_vector, vector< uint32 > &index_vector) const [inline, virtual] getFeature(const uint32 featureI) const [inline, virtual] getFeatureListLength() const [inline, virtual] getFilterList() const [inline, virtual] getHeader(const uint32 contigI, const uint32 headerI) const [virtual] getHeaderListLength(const uint32 contigI) const [virtual] getIntersectingFeatures(const gnLocation &lt, vector< gnBaseFeature *> &feature_vector, vector< uint32 > &index_vector) const [inline, virtual] GetSeqC(const gnSeqI offset) const [virtual] GetSpec() const [inline, virtual] globalToLocal(uint32 &contigI, gnSeqI &baseI) const [virtual] globalToSource(uint32 &contigI, gnSeqI &baseI) const [virtual] gnClone() [inline] gnRNASequence() [inline] gnRNASequence(const gnSeqC *seq) [inline] gnRNASequence(const string &str) [inline] gnRNASequence(const gnGenomeSpec &gngs) [inline] gnRNASequence(const gnFragmentSpec &gnfs) [inline] gnRNASequence(const gnContigSpec &gncs) [inline] gnRNASequence(gnSeqC *bases, const gnSeqI length) [inline] gnRNASequence(const gnRNASequence &seq) [inline] gnSequence() gnSequence(const gnSeqC *seq) gnSequence(const string &str) gnSequence(const gnGenomeSpec &gngs) gnSequence(const gnFragmentSpec &gnfs) gnSequence(const gnContigSpec &gncs) gnSequence(gnSeqC *bases, const gnSeqI length) gnSequence(const gnSequence &seq) insert(const gnSeqI offset, const gnSeqC *bases, const gnSeqI length) [virtual] insert(const gnSeqI offset, const gnSequence &seq) [inline, virtual] insert(const gnSeqI offset, const gnGenomeSpec &gnbs) [virtual] isCircular() const [inline, virtual] isReverseComplement(const uint32 contigI=ALL_CONTIGS) [virtual] length() const [inline, virtual] LoadSource(const string sourcename) [virtual] localToGlobal(const uint32 contigI, gnSeqI &baseI) const [virtual] localToSource(uint32 &contigI, gnSeqI &baseI) const [virtual] merge(const gnSeqI startI, const gnSeqI endI) [virtual] mergeContigs(const uint32 startC, const uint32 endC) [virtual] operator!=(const gnSequence &seq) const [inline] operator+(const gnSequence &seq) const operator+=(const gnSequence &seq) [inline] operator<(const gnSequence &seq) const [inline] operator<<(std::ostream &os, const gnSequence &gns) [friend] operator<=(const gnSequence &seq) const [inline] operator=(const gnSequence &seq) operator=(gnSequence &seq) [inline] operator==(const gnSequence &seq) const [inline] operator>(const gnSequence &seq) const [inline] operator>=(const gnSequence &seq) const [inline] operator>>(std::istream &is, gnSequence &gns) [friend] operator[](const gnSeqI offset) const removeFeature(const uint32 featureI) [inline, virtual] removeHeader(const uint32 contigI, const uint32 headerI) [virtual] setCircular(const boolean value) [inline, virtual] setContigName(const uint32 contigI, const string &contig_name) [virtual] setFilter(const gnBaseFilter *filt) [inline, virtual] setFilterList(list< const gnBaseFilter *> &filt_list) [inline, virtual] setReverseComplement(const boolean revComp, const uint32 contigI=ALL_CONTIGS) [virtual] SetSpec(gnGenomeSpec *s) [inline, virtual] size() const [inline, virtual] spec [private] splitContig(const gnSeqI splitI, const uint32 contigI=ALL_CONTIGS) [virtual] subseq(const gnSeqI offset, const gnSeqI length) const ToArray(gnSeqC *pSeqC, gnSeqI length, const gnSeqI offset=1) const [virtual] ToString(const gnSeqI length=GNSEQI_END, const gnSeqI offset=1) const [virtual] ToString(string &str, const gnSeqI length=GNSEQI_END, const gnSeqI offset=1) const [virtual] ~gnClone() [inline, virtual] ~gnSequence()