Class Bio::PTS1::Report
In: lib/bio/appl/pts1.rb
Parent: Object

Parser for the PTS1 prediction Report (in HTML).

Methods

new  

Attributes

cterm  [R]  Amino acids subsequence at C-terminal region.
entry_id  [R]  Query sequence name.
fp  [R]  False positive probability
output  [R]  Raw output
prediction  [R]  Prediction ("Targeted", "Twilight zone" and "Not targeted")
profile  [R]  Profile
score  [R]  Score
sppta  [R]  S_ppt (accessibility)
spptna  [R]  S_ppt (non accessibility)

Public Class methods

new(str)

Parsing PTS1 HTML report.

Example

  report = Bio::PTS1::Report.new(str)
  report.cterm

[Source]

     # File lib/bio/appl/pts1.rb, line 211
211:     def initialize(str)
212:       @cterm   = ''
213:       @score   = 0
214:       @profile = 0
215:       @spptna  = 0
216:       @sppta   = 0
217:       @fp      = 0
218:       @prediction = 0
219:       
220:       if /PTS1 query prediction/m =~ str
221:         @output = str
222:         parse
223:       else
224:         raise 
225:       end
226:     end

[Validate]