phe.annotations

Submodules

• phe.annotations.CoverageAnnotator module

Module contents

Date:10 Nov, 2015 Author:Alex Jironkin

class Annotator(name)

Bases: phe.metadata.PHEMetaData

Base class for Annotators

Attributes

name

Methods

annotate([vcf_path])
get_meta()
get_meta_values()

annotate(vcf_path=None)

get_meta()

get_meta_values()

name = None

available_annotators()

Return list of available filters.

dynamic_annotator_loader()

Fancy way of dynamically importing existing annotators.

Returns:

dict:

Available annotators dictionary. Keys are parameters that can be supplied to the filters.

make_annotators(config)

Create a list of annotators from config.

Parameters:

config: dict, optional

Dictionary with name: value pairs. For each name, an appropriate Annotator will be found and instanciated.

Returns:

list:

List of Annotator annotators.