Python quality_trim_index Examples

Example #1

File: cutadapt.py Project: radaniba/cutadapt

 def trimmed(self, read):
     index = quality_trim_index(read.qualities, self.cutoff, self.base)
     self.trimmed_bases += len(read.qualities) - index
     return read[:index]

Example #2

File: modifiers.py Project: rubysheng/cutadapt

	def __call__(self, read, matches):
		start, stop = quality_trim_index(read.qualities, self.cutoff_front, self.cutoff_back, self.base)
		self.trimmed_bases += len(read) - (stop - start)
		return read[start:stop]

Example #3

File: cutadapt.py Project: xflicsu/miRNA-mRNA_Integration

 def trimmed(self, read):
     index = quality_trim_index(read.qualities, self.cutoff, self.base)
     self.trimmed_bases += len(read.qualities) - index
     return read[:index]

Example #4

File: modifiers.py Project: konosato/cutadapt

	def __call__(self, read):
		start, stop = quality_trim_index(read.qualities, self.cutoff_front, self.cutoff_back, self.base)
		self.trimmed_bases += len(read) - (stop - start)
		return read[start:stop]