Class: Bio::PSORT::WoLF_PSORT

Inherits:

Object

Object
Bio::PSORT::WoLF_PSORT

show all

Defined in:: lib/bio/appl/psort/wolf_psort_wrapper.rb

Defined Under Namespace

Classes: Report, Wrapper

Constant Summary collapse

LOCATIONS = taken from wolfpsort.org/aboutWoLF_PSORT.html.en

[
  'chlo',
  'cyto',
  'cysk',
  'E.R.',
  'extr',
  'golg',
  'lyso',
  'mito',
  'nucl',
  'pero',
  'plas',
  'vacu' 
]

ORGANISM_TYPES =

[
  'animal',
  'plant',
  'fungi'
]

ANIMAL_LOCATIONS = Locations for each lineage were taken from Table 1 of: Paul Horton, Keun-Joon Park, Takeshi Obayashi & Kenta Nakai, “Protein Subcellular Localization Prediction with WoLF PSORT”, Proceedings of the 4th Annual Asia Pacific Bioinformatics Conference APBC06, Taipei, Taiwan. pp. 39-48, 2006.)

LOCATIONS.reject{|l| l=='chlo'}

FUNGI_LOCATIONS =

LOCATIONS.reject{|l| l=='chlo' or l=='lyso'}

PLANT_LOCATIONS =

LOCATIONS.reject{|l| l=='lyso'}