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


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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