Version 0.4.1
New features:
- `scatter` command:
Option -c can now take coordinate ranges like -r, so -r is deprecated and
will be removed in the next release.
- `genome2access.py` script:
New -x option to exclude additional regions. Added a new file
"data/access-5k-mappable.hg19.bed" which used this option to exclude the
Encode "Duke" and "Dac" low-mappability regions.
Also:
- Improved the help/usage messages for several commands. Added a "version"
command that prints the current CNVkit version. (Thanks @HenrikBengtsson)
- Tuned CBS calling parameters to improve segmentation accuracy according to
some benchmarks.
- Sped up a few slow functions identified by profiling. In particular,
`metrics` is much faster now.
- Fixed bugs/incompatibilities in plotting commands and cleaned up the source
code (Thanks @chapmanb and @roryk)
CNVkit can now be obtained and run as a Docker container:
https://registry.hub.docker.com/u/etal/cnvkit/