Class: Bio::TwoBit::ReferenceGenome

Inherits:

Bio::TwoBit

• Object
• Bio::TwoBit
• Bio::TwoBit::ReferenceGenome

Defined in:

lib/bio/twobit/reference_genome.rb

Direct Known Subclasses

AilMel1, AllMis1, AnoCar2, AnoGam3, ApiMel2, AplCal1, AptMan1, AquChr2, BalAcu1, BosTau7, BraFlo1, CaeJap1, CaePb2, CaeRem3, CalJac4, CalMil1, CanFam4, CanFam6, Cb3, Ce11, CerSim1, ChlSab2, ChoHof1, ChrPic1, Ci2, CriGriChoV2, DanRer10, DanRer11, DasNov3, DipOrd1, Dm6, Dp3, DroAna2, DroEre1, DroGri1, DroMoj2, DroPer1, DroSec1, DroSim1, DroVir2, DroYak2, EboVir3, EchTel2, EquCab3, EriEur2, FelCat9, Fr2, GadMor1, GalGal6, GeoFor1, GorGor6, HetGla2, Hg19, Hg38, Hs1, LatCha1, LoxAfr3, MacEug2, MacFas5, ManPen1, MelGal1, MelUnd1, MicMur2, Mm10, Mm39, Mm9, MonDom5, MyoLuc2, NanPar1, NasLar1, NeoSch1, NomLeu3, OchPri3, OreNil2, OrnAna2, OryCun2, OryLat2, OtoGar3, OviAri4, PanPan3, PanTro6, PapAnu4, PapHam1, PetMar3, PonAbe2, PonAbe3, PriPac1, ProCap1, PteVam1, RheMac10, Rn6, SacCer3, SaiBol1, SarHar1, SorAra2, SpeTri2, StrPur2, SusScr11, TaeGut2, TarSyr2, TetNig2, ThaSir1, TriMan1, TupBel1, TurTru2, UusFur1, VicPac2, WuhCor1, XenTro10

Constant Summary

Constants inherited from Bio::TwoBit

VERSION

Instance Attribute Summary

Attributes inherited from Bio::TwoBit

#metadata

Class Method Summary

• .open(*args, **kwargs, &block) ⇒ Object

Instance Method Summary

• #initialize(**kwargs) ⇒ ReferenceGenome constructor

  A new instance of ReferenceGenome.

Methods inherited from Bio::TwoBit

#bases, #chroms, #clear_cache!, #close, #closed?, #hard_masked_blocks, #info, #masked?, #path, #sequence, #soft_masked_blocks

Constructor Details

#initialize(**kwargs) ⇒ ReferenceGenome

Returns a new instance of ReferenceGenome.

# File 'lib/bio/twobit/reference_genome.rb', line 10

def initialize(**kwargs)
  @local_name ||= File.basename(@data_url)
  super(prepare_data, **kwargs)
end

Class Method Details

.open(*args, **kwargs, &block) ⇒ Object

Raises:

• (ArgumentError)

# File 'lib/bio/twobit/reference_genome.rb', line 4

def self.open(*args, **kwargs, &block)
  raise ArgumentError, "#{self}#open() does not accept arguments" if args.any?

  super(**kwargs, &block)
end