Man page - cnvkit-export(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_EXPORT(1) | User Commands | CNVKIT_EXPORT(1) |
NAME
cnvkit_export - Convert CNVkit output files to another format.
DESCRIPTION
usage: cnvkit.py export [-h]
- {bed,seg,vcf,theta,nexus-basic,nexus-ogt,cdt,jtv,gistic}
- ...
positional arguments:
- {bed,seg,vcf,theta,nexus-basic,nexus-ogt,cdt,jtv,gistic}
- Export formats (use with -h for more info).
- bed
- Convert segments to BED format. Input is a segmentation file (.cns) where, preferably, log2 ratios have already been adjusted to integer absolute values using the 'call' command.
- seg
- Convert segments to SEG format. Compatible with IGV and GenePattern.
- vcf
- Convert segments to VCF format. Input is a segmentation file (.cns) where, preferably, log2 ratios have already been adjusted to integer absolute values using the 'call' command.
- theta
- Convert segments to THetA2 input file format (*.input).
- nexus-basic
- Convert bin-level log2 ratios to Nexus Copy Number "basic" format.
- nexus-ogt
- Convert log2 ratios and b-allele freqs to Nexus "Custom-OGT" format.
- cdt
- Convert log2 ratios to CDT format. Compatible with Java TreeView.
- jtv
- Convert log2 ratios to Java TreeView's native format.
- gistic
options:
- -h, --help
- show this help message and exit
| July 2023 | cnvkit.py export 0.9.10 |