Man page - cnvkit-fix(1)
Packages contas this manual
- cnvkit-import-seg(1)
- cnvkit-breaks(1)
- cnvkit-heatmap(1)
- cnvkit-import-theta(1)
- cnvkit-autobin(1)
- cnvkit-sex(1)
- cnvkit-diagram(1)
- cnvkit-reference(1)
- cnvkit-genemetrics(1)
- cnvkit-segment(1)
- cnvkit-scatter(1)
- cnvkit-target(1)
- cnvkit-call(1)
- cnvkit-batch(1)
- cnvkit-metrics(1)
- cnvkit-segmetrics(1)
- cnvkit-coverage(1)
- cnvkit-export(1)
- cnvkit-import-picard(1)
- cnvkit-fix(1)
- cnvkit-bintest(1)
- cnvkit-import-rna(1)
- cnvkit-antitarget(1)
- cnvkit-access(1)
Package: cnvkit
apt-get install cnvkit
apt-get install cnvkit
Manuals in package:
Documentations in package:
Manual
| CNVKIT_FIX(1) | User Commands | CNVKIT_FIX(1) |
NAME
cnvkit_fix - Combine target and antitarget coverages and correct for biases.
Adjust raw coverage data according to the given reference, correct potential
biases and re-center.
DESCRIPTION
usage: cnvkit.py fix [-h] [-c] [-i SAMPLE_ID] [--no-gc] [--no-edge]
- [--no-rmask] [-o FILENAME]
- target antitarget reference
positional arguments:
- target
- Target coverage file (.targetcoverage.cnn).
- antitarget
- Antitarget coverage file (.antitargetcoverage.cnn).
- reference
- Reference coverage (.cnn).
options:
- -h, --help
- show this help message and exit
- -c, --cluster
- Compare and use cluster-specific values present in the reference profile. (Requires that the reference profile was built with the --cluster option.)
- -i SAMPLE_ID, --sample-id SAMPLE_ID
- Sample ID for target/antitarget files. Otherwise inferred from file names.
- --no-gc
- Skip GC correction.
- --no-edge
- Skip edge-effect correction.
- --no-rmask
- Skip RepeatMasker correction.
- -o FILENAME, --output FILENAME
- Output file name.
| July 2023 | cnvkit.py fix 0.9.10 |