cachedRDSload | Cached Loading of RDS Files |
findBestNpvs | Quickly Find N Smallest P-values in a Long Vector |
get | Functions for Access to Data, MWAS Results, and Location... |
getCpGset | Construct CpG set for a Reference Genome |
injectSNPsMAF | Inject SNPs from VCF Count File into a DNA Sequence |
insilicoFASTQ | Construct FASTQ File for In-silico Alignment Experiment |
isAbsolutePath | Check if Path is Absolute. |
MakeBED | Export MWAS results in BED format. |
makefullpath | Combine Path and Filename into Filename with Path |
manhattan | Fast Manhattan plot for Large Number of P-values |
mat2cols | Split a Matrix into Column Vectors |
orthonormalizeCovariates | Orthonormalize Covariates |
parameterDump | Save Parameters in a Text File |
parameterPreprocess | Preprocess Pipeline Parameter List. |
parametersFromFile | Scan Parameters From a R Code File |
pipeline | RaMWAS: High Level Pipeline Functions |
plotCV | Plotting Functions used in Cross Validation Analysis... |
plotFragmentSizeDistributionEstimate | Estimate and plot Fragment Size Distribution. |
plotPC | Plot Principal component (PC) Values (variation explained)... |
processCommandLine | Scan Parameters From Command Line |
pvalue2qvalue | Calculate Benjamini-Hochberg q-values |
QCs | Quality Control Measures |
qqplotFast | Fast QQ-plot for Large Number of P-values |
RaMWAS | Fast Methylome-wide Association Study Pipeline for Enrichment... |
ramwas0createArtificialData | Create Artificial Data Set |
ramwasAnnotateLocations | Extract Biomart Annotation for a Vector of Locations. |
ramwasParameters | Function for Convenient Filling of the RaMWAS Parameter List. |
rowcolSumSq | Form Row and Column Sums of Squares |
rwDataClass-class | Class for Accessing Data (Coverage) Matrix |
subsetData | Subset a data matrix and locations |
testPhenotype | Test the Phenotype of Interest for Association with... |
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