Corrects GC and mappability biases for readcounts (i.e. coverage) in non-overlapping windows of fixed length for single whole genome samples, yielding a rough estimate of copy number for furthur analysis. Designed for rapid correction of high coverage whole genome tumour and normal samples.
|Author||Daniel Lai, Gavin Ha, Sohrab Shah|
|Date of publication||None|
|Maintainer||Daniel Lai <email@example.com>, Sohrab Shah <firstname.lastname@example.org>|
correctReadcount: Readcount correction for GC and mappability bias
HMMcopy-dataset: HMMcopy example dataset
HMMcopy-input: WIG Import Functions
HMMcopy-internal: HMMcopy internal functions
HMMcopy-output: WIG Output Functions
HMMcopy-package: Bias-free copy number estimation and robust CNA detection in...
HMMcopy-visualize: Visualization functions for correctReadcount results
HMMsegment: Segmentation and classification of copy number profiles
wigsToRangedData: Parsing and sorting of uncorrected read and sequence...