Package org.biojava.nbio.core.sequence.template

Interface SequenceReader<C extends Compound>

All Superinterfaces:

Accessioned, Iterable<C>, Sequence<C>

All Known Subinterfaces:

ProxySequenceReader<C>

All Known Implementing Classes:

ArrayListProxySequenceReader, ArrayListSequenceReader, BitSequenceReader, FourBitSequenceReader, GenbankProxySequenceReader, JoiningSequenceReader, RnaSequenceView, SequenceFileProxyLoader, SingleCompoundSequenceReader, StringProxySequenceReader, TwoBitSequenceReader, UniprotProxySequenceReader

public interface SequenceReader<C extends Compound>
extends Sequence<C>

Method Summary

Modifier and Type	Method	Description
void	setCompoundSet(CompoundSet<C> compoundSet)
void	setContents(String sequence)

Methods inherited from interface org.biojava.nbio.core.sequence.template.Accessioned

getAccession

Methods inherited from interface java.lang.Iterable

forEach, iterator, spliterator

Methods inherited from interface org.biojava.nbio.core.sequence.template.Sequence

countCompounds, getAsList, getCompoundAt, getCompoundSet, getIndexOf, getInverse, getLastIndexOf, getLength, getSequenceAsString, getSubSequence

Method Details

setCompoundSet

void setCompoundSet(CompoundSet<C> compoundSet)

setContents

void setContents(String sequence)
          throws CompoundNotFoundException

Throws:

CompoundNotFoundException