DNA

Type Members

sealed abstract class Gap extends NTSymbol
class GappedSequence extends bio.Sequence[NTSymbol]
sealed abstract class IUPAC extends NTSymbol
class IUPACGappedSequence extends bio.Sequence[NTSymbol]
class IUPACSequence extends bio.Sequence[NTSymbol]
abstract class NTSymbol extends Symbol
sealed abstract class Nucleotide extends NTSymbol
class Sequence extends bio.Sequence[Nucleotide]

A DNA Sequence contains a List of Nucleotide.

Value Members

object A extends Nucleotide with Product with Serializable
object B extends IUPAC with Product with Serializable
object C extends Nucleotide with Product with Serializable
object D extends IUPAC with Product with Serializable
object G extends Nucleotide with Product with Serializable
object Gap extends Gap with Product with Serializable
object GappedConvert extends GappedConvert[NTSymbol]
object H extends IUPAC with Product with Serializable
object IUPACGappedConvert extends GappedConvert[NTSymbol]
object IUPACNucleotideConvert extends StringConverter[NTSymbol]
object K extends IUPAC with Product with Serializable
object M extends IUPAC with Product with Serializable
object N extends IUPAC with Product with Serializable
object NucleotideConvert extends StringConverter[Nucleotide]
object R extends IUPAC with Product with Serializable
object S extends IUPAC with Product with Serializable
object SegmentizeGappedSequence extends SegmentizeGappedSequence[NTSymbol]
object SequenceTranscription
object SequenceTranslation extends SequenceTranslation[RNA.Nucleotide]
object SparseAlignment extends SparseAlignment[NTSymbol]
object SymbolConvert extends StringConverter[NTSymbol]
object SymbolSequenceTranscription
object SymbolSequenceTranslation extends SequenceTranslation[RNA.NTSymbol]
object T extends Nucleotide with Product with Serializable
object ToDNA
object ToGappedDNA

Take a DNA or RNA string and convert it to a DNA nucleotide list - allowing for ambiguous codes (IUPAC) and gaps
object ToGappedSequence
object ToSequence
object V extends IUPAC with Product with Serializable
object W extends IUPAC with Product with Serializable
object Y extends IUPAC with Product with Serializable

package DNA

Type Members

sealed abstract class Gap extends NTSymbol

class GappedSequence extends bio.Sequence[NTSymbol]

sealed abstract class IUPAC extends NTSymbol

class IUPACGappedSequence extends bio.Sequence[NTSymbol]

class IUPACSequence extends bio.Sequence[NTSymbol]

abstract class NTSymbol extends Symbol

sealed abstract class Nucleotide extends NTSymbol

class Sequence extends bio.Sequence[Nucleotide]

Value Members

object A extends Nucleotide with Product with Serializable

object B extends IUPAC with Product with Serializable

object C extends Nucleotide with Product with Serializable

object D extends IUPAC with Product with Serializable

object G extends Nucleotide with Product with Serializable

object Gap extends Gap with Product with Serializable

object GappedConvert extends GappedConvert[NTSymbol]

object H extends IUPAC with Product with Serializable

object IUPACGappedConvert extends GappedConvert[NTSymbol]

object IUPACNucleotideConvert extends StringConverter[NTSymbol]

object K extends IUPAC with Product with Serializable

object M extends IUPAC with Product with Serializable

object N extends IUPAC with Product with Serializable

object NucleotideConvert extends StringConverter[Nucleotide]

object R extends IUPAC with Product with Serializable

object S extends IUPAC with Product with Serializable

object SegmentizeGappedSequence extends SegmentizeGappedSequence[NTSymbol]

object SequenceTranscription

object SequenceTranslation extends SequenceTranslation[RNA.Nucleotide]

object SparseAlignment extends SparseAlignment[NTSymbol]

object SymbolConvert extends StringConverter[NTSymbol]

object SymbolSequenceTranscription

object SymbolSequenceTranslation extends SequenceTranslation[RNA.NTSymbol]

object T extends Nucleotide with Product with Serializable

object ToDNA

object ToGappedDNA

object ToGappedSequence

object ToSequence

object V extends IUPAC with Product with Serializable

object W extends IUPAC with Product with Serializable

object Y extends IUPAC with Product with Serializable

Ungrouped