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Version
1.3.3
0.99.7
0.8.2
0.8.1
0.8
0.1
Version
0.99.7
License
BSD_3_clause + file LICENSE
Issues
226
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Stars
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176
Repository
https://github.com/broadinstitute/inferCNV/wiki
Maintainer
Christophe Georgescu
Last Published
August 25th, 2021
Functions in infercnv (0.99.7)
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CreateInfercnvObject
CreateInfercnvObject
annots
Generated classification for 10 normal cells and 10 tumor cells.
mcmc_obj
infercnv object result of the processing of inferCNVBayesNet in the example, to be used for other examples.
plot_cnv
Plot the matrix as a heatmap, with cells as rows and genes as columns, ordered according to chromosome
apply_median_filtering
apply_median_filtering
validate_infercnv_obj
validate_infercnv_obj()
data
Generated SmartSeq2 expression data with 10 normal cells and 10 tumor cells. This is only to demonstrate how to use methods, not actual data to be used in an analysis.
run
run() : Invokes a routine inferCNV analysis to Infer CNV changes given a matrix of RNASeq counts.
infercnv-package
infercnv: Infer Copy Number Variation from Single-Cell RNA-Seq Data
infercnv_obj
infercnv object result of the processing of run() in the example, to be used for other examples.
filterHighPNormals
filterHighPNormals: Filter the HMM identified CNV's by the CNV's posterior probability of belonging to a normal state.
genes
Downsampled gene coordinates file from GrCh37
inferCNVBayesNet
inferCNVBayesNet: Run Bayesian Network Mixture Model To Obtain Posterior Probabilities For HMM Predicted States
infercnv-class
The infercnv Class
MCMC_inferCNV-class
MCMC_inferCNV class
HMM_states
infercnv object result of the processing of run() in the HMM example, to be used for other examples.