bdgenomics.mango.alignments.MapQDistribution¶

class bdgenomics.mango.alignments.MapQDistribution(ss, alignmentDataset, sample=1.0)[source]¶

MapQDistribution class. Plotting functionality for visualizing mapping quality distributions of multi-sample cohorts.

__init__(ss, alignmentDataset, sample=1.0)[source]¶

Initializes a MapQDistribution class. Computes the mapping quality distribution of an AlignmentDataset. This Dataset can have data for multiple samples.

Args:

param alignmentDataset:
param ss:	global SparkSession.
	A bdgenomics.adam.dataset.AlignmentDataset object.
param sample:	Fraction to sample AlignmentDataset. Should be between 0 and 1

Methods

`__init__`(ss, alignmentDataset[, sample])	Initializes a MapQDistribution class.
`plotDistributions`([normalize, cumulative, …])	Plots final distribution values and returns the plotted distribution as a Counter object.

Attributes

`pre_sampled`
`rdd`
`sample`
`seed`
`ss`