switchConfigure

Switch Configure for case and control, these two situation have different output directory parameter confName: one of the Configure name defined in Configure2 (case and ctrl)

Parameters

switchConfigure(confName=None)

Example usage:

from cfDNApipe import *

pipeConfigure2(
    threads=20,
    genome="hg19",
    refdir=r"reference_genome/hg19",
    outdir=r"output/pcs_armCNV",
    data="WGS",
    type="paired",
    JavaMem="8G",
    case="cancer",
    ctrl="normal",
    build=True,
)

switchConfigure("cancer")

switchConfigure("normal")