filterHighPNormals: filterHighPNormals: Filter the HMM identified CNV's by the...
In infercnv: Infer Copy Number Variation from Single-Cell RNA-Seq Data

Description Usage Arguments Value Examples

The following function will filter the HMM identified CNV's by the CNV's posterior probability of belonging to a normal state identified by the function inferCNVBayesNet(). Will filter CNV's based on a user desired threshold probability. Any CNV with a probability of being normal above the threshold will be removed.

1	filterHighPNormals(MCMC_inferCNV_obj, HMM_states, BayesMaxPNormal)

`MCMC_inferCNV_obj`	MCMC infernCNV object.
`HMM_states`	InferCNV object with HMM states in expression data.
`BayesMaxPNormal`	Option to filter CNV or cell lines by some probability threshold.

Returns a list of (MCMC_inferCNV_obj, HMM_states) With removed CNV's.

data(mcmc_obj)

mcmc_obj_hmm_states_list <- infercnv::filterHighPNormals( MCMC_inferCNV_obj = mcmc_obj, 
                                          HMM_states        = HMM_states, 
                                          BayesMaxPNormal   = 0.5)