Uses of Class
pl.poznan.put.structure.formats.BpSeq.Entry

Packages that use BpSeq.Entry

Package	Description
pl.poznan.put.structure.formats
pl.poznan.put.structure.pseudoknots	Package contains classes that handle pseudoknots in secondary structure.

Uses of BpSeq.Entry in pl.poznan.put.structure.formats

Subclasses of BpSeq.Entry in pl.poznan.put.structure.formats

Modifier and Type	Class	Description
class	ImmutableEntry	Immutable implementation of BpSeq.Entry.

Methods in pl.poznan.put.structure.formats that return BpSeq.Entry

Modifier and Type	Method	Description
static BpSeq.Entry	BpSeq.Entry.fromString(String line)	Parses a string into a BPSEQ entry.

Methods in pl.poznan.put.structure.formats that return types with arguments of type BpSeq.Entry

Modifier and Type	Method	Description
abstract SortedSet<BpSeq.Entry>	BpSeq.entries()
SortedSet<BpSeq.Entry>	ImmutableBpSeq.entries()
SortedSet<BpSeq.Entry>	BpSeq.paired()

Methods in pl.poznan.put.structure.formats with parameters of type BpSeq.Entry

Modifier and Type	Method	Description
ImmutableBpSeq.Builder	ImmutableBpSeq.Builder.addEntries(BpSeq.Entry element)	Adds one element to entries sortedSet.
ImmutableBpSeq.Builder	ImmutableBpSeq.Builder.addEntries(BpSeq.Entry... elements)	Adds elements to entries sortedSet.
int	BpSeq.Entry.compareTo(BpSeq.Entry t)
static ImmutableEntry	ImmutableEntry.copyOf(BpSeq.Entry instance)	Creates an immutable copy of a BpSeq.Entry value.
ImmutableEntry.Builder	ImmutableEntry.Builder.from(BpSeq.Entry instance)	Fill a builder with attribute values from the provided Entry instance.
static Ct.ExtendedEntry	Ct.ExtendedEntry.fromEntry(BpSeq.Entry entry)	Converts a BPSEQ entry into an instance of this class.
static Ct.ExtendedEntry	Ct.ExtendedEntry.fromEntryAndPdbResidue(BpSeq.Entry entry, ChainNumberICode residue, PdbModel model)	Converts a BPSEQ entry into an instance of this class using information from a parsed 3D data.
ImmutableBpSeq	ImmutableBpSeq.withEntries(BpSeq.Entry... elements)	Copy the current immutable object with elements that replace the content of entries.
BpSeq	BpSeq.withoutPair(BpSeq.Entry entry)	Creates a copy of this instance, but with the given pair removed.

Method parameters in pl.poznan.put.structure.formats with type arguments of type BpSeq.Entry

Modifier and Type	Method	Description
ImmutableBpSeq.Builder	ImmutableBpSeq.Builder.addAllEntries(Iterable<? extends BpSeq.Entry> elements)	Adds elements to entries sortedSet.
ImmutableBpSeq.Builder	ImmutableBpSeq.Builder.entries(Iterable<? extends BpSeq.Entry> elements)	Sets or replaces all elements for entries sortedSet.
static ImmutableBpSeq	ImmutableBpSeq.of(Iterable<? extends BpSeq.Entry> entries)	Construct a new immutable BpSeq instance.
static ImmutableBpSeq	ImmutableBpSeq.of(SortedSet<BpSeq.Entry> entries)	Construct a new immutable BpSeq instance.
ImmutableBpSeq	ImmutableBpSeq.withEntries(Iterable<? extends BpSeq.Entry> elements)	Copy the current immutable object with elements that replace the content of entries.

Uses of BpSeq.Entry in pl.poznan.put.structure.pseudoknots

Methods in pl.poznan.put.structure.pseudoknots that return types with arguments of type BpSeq.Entry

Modifier and Type	Method	Description
List<BpSeq.Entry>	ImmutableRegion.entries()
abstract List<BpSeq.Entry>	Region.entries()

Methods in pl.poznan.put.structure.pseudoknots with parameters of type BpSeq.Entry

Modifier and Type	Method	Description
ImmutableRegion.Builder	ImmutableRegion.Builder.addEntries(BpSeq.Entry element)	Adds one element to entries list.
ImmutableRegion.Builder	ImmutableRegion.Builder.addEntries(BpSeq.Entry... elements)	Adds elements to entries list.
ImmutableRegion	ImmutableRegion.withEntries(BpSeq.Entry... elements)	Copy the current immutable object with elements that replace the content of entries.

Method parameters in pl.poznan.put.structure.pseudoknots with type arguments of type BpSeq.Entry

Modifier and Type	Method	Description
ImmutableRegion.Builder	ImmutableRegion.Builder.addAllEntries(Iterable<? extends BpSeq.Entry> elements)	Adds elements to entries list.
ImmutableRegion.Builder	ImmutableRegion.Builder.entries(Iterable<? extends BpSeq.Entry> elements)	Sets or replaces all elements for entries list.
static ImmutableRegion	ImmutableRegion.of(Iterable<? extends BpSeq.Entry> entries)	Construct a new immutable Region instance.
static ImmutableRegion	ImmutableRegion.of(List<BpSeq.Entry> entries)	Construct a new immutable Region instance.
ImmutableRegion	ImmutableRegion.withEntries(Iterable<? extends BpSeq.Entry> elements)	Copy the current immutable object with elements that replace the content of entries.