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")