Random Forest for SNPs to Prevent X-chromosome SNP Importance Bias

Documentation for package ‘snpRF’ version 0.4

Help Pages

autosome.snps	Simulated genetic data
classCenter	Prototypes of groups.
combine	Combine Ensembles of Trees
covariates	Simulated genetic data
gender	Simulated genetic data
getTree	Extract a single tree from a forest.
grow	Add trees to an ensemble
grow.default	Add trees to an ensemble
grow.snpRF	Add trees to an ensemble
importance	Extract variable importance measure
importance.default	Extract variable importance measure
importance.snpRF	Extract variable importance measure
margin	Margins of snpRF Classifier
margin.default	Margins of snpRF Classifier
margin.snpRF	Margins of snpRF Classifier
MDSplot	Multi-dimensional Scaling Plot of Proximity matrix from snpRF
na.roughfix	Rough Imputation of Missing Values
na.roughfix.data.frame	Rough Imputation of Missing Values
na.roughfix.default	Rough Imputation of Missing Values
outlier	Compute outlying measures
outlier.default	Compute outlying measures
outlier.snpRF	Compute outlying measures
phenotype	Simulated genetic data
plot.margin	Margins of snpRF Classifier
plot.snpRF	Plot method for snpRF objects
predict.snpRF	predict method for snpRF objects
print.snpRF	Classification with Random Forest for SNP Data
snpRF	Classification with Random Forest for SNP Data
snpRFcv	Random Forest Cross-Valdidation for feature selection
snpRFexample	Simulated genetic data
snpRFImpute	Missing Value Imputations by snpRF
snpRFNews	Show the NEWS file
treesize	Size of trees in an ensemble
tuneSnpRF	Tune snpRF for the optimal mtry parameter
varImpPlot	Variable Importance Plot
varUsed	Variables used in a random forest
xchrom.snps	Simulated genetic data
xchrom.snps.names	Simulated genetic data