runExtractInheritance: Annotate original PennCNV trio data table with inheritance...

In aksenia/SeeCiTe: Assess the quality of and visualize array CNV callset for trios

Description

Annotate original PennCNV trio data table with inheritance status using trio state decomposition

Usage

runExtractInheritance(filename_orig, filename_merged)

Arguments

filename_orig	A path to output file of PennCNV trio
filename_merged	A path to a result of merging with PennCNV of the filename_orig

Value

Returns paths to and writes files with status of inheritance, one of "denovo"/"inherited"/"ambiguous" for offspring and "call_in_parent" for parents (with and without parental data), as well as file with no inheritance information for further merging. In case if no merging is planned, a log file with original PennCNV trio states is also written for further in the pipeline.

aksenia/SeeCiTe documentation built on Jan. 19, 2021, 12:35 a.m.