module Bio::Sequence::QualityScore::Solexa
Bio::Sequence::QualityScore::Solexa is a module having quality calculation methods for the Solexa quality score.
BioRuby internal use only (mainly from Bio::Fastq).
Public Class Methods
Public Instance Methods
quality_score_type()
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Type of quality scores.
 Returns

(Symbol) the type of quality score.
# File lib/bio/sequence/quality_score.rb, line 152 def quality_score_type :solexa end
solexa_p2q(probabilities)
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Probability to Solexa score conversion.
Arguments:

(required) probabilities: (Array containing Float) probabilities
 Returns

(Array containing Float) scores
# File lib/bio/sequence/quality_score.rb, line 182 def solexa_p2q(probabilities) probabilities.collect do p t = p / (1.0  p) t = Float::MIN if t < Float::MIN q = 10 * Math.log10(t) q.finite? ? q.round : q end end
Also aliased as: p2q
solexa_q2p(scores)
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Solexa score to probability conversion.
Arguments:

(required) scores: (Array containing Integer) scores
 Returns

(Array containing Float) probabilities
# File lib/bio/sequence/quality_score.rb, line 161 def solexa_q2p(scores) scores.collect do q t = 10 ** ( q / 10.0) t /= (1.0 + t) if t > 1.0 then t = 1.0 #elsif t < 0.0 then # t = 0.0 end t end end
Also aliased as: q2p