This is a method for DNA Copy Number Profiling using Next-Generation Sequencing. It has new model and test statistics based on non-homogeneous Poisson Processes with change point models. It uses an adaptation of Circular Binary Segmentation. Also included are methods for point-wise Bayesian Confidence Interval and model selection method for the change-point model. A case and a control sample reads (normal and tumor) are required.
| Version: | 1.2.1 |
| Depends: | R (≥ 2.10), clue |
| Published: | 2019-04-13 |
| Author: | Jeremy J. Shen, Nancy R. Zhang |
| Maintainer: | Jeremy J. Shen <jeremyjshen at gmail.com> |
| License: | GPL-2 |
| NeedsCompilation: | yes |
| CRAN checks: | seqCBS results |
| Reference manual: | seqCBS.pdf |
| Package source: | seqCBS_1.2.1.tar.gz |
| Windows binaries: | r-devel: seqCBS_1.2.1.zip, r-release: seqCBS_1.2.1.zip, r-oldrel: seqCBS_1.2.1.zip |
| macOS binaries: | r-release: seqCBS_1.2.1.tgz, r-oldrel: seqCBS_1.2.1.tgz |
| Old sources: | seqCBS archive |
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