Man pages for JEFworks/badger
Bayesian approach for detecting copy number alterations from single cell RNA-seq data

calcAlleleCnvProbRun BADGER allele-only model to assess posterior probability...
calcCombCnvProbRun BADGER combined model to assess posterior probability of...
calcErrorRateCalculate effective error rate
calcGexpCnvProbRun BADGER expression-only model to assess posterior...
clafProfileComposite Minor Allele Frequency (CLAF) Profile plot
geneFactorsReturns a factor vector across pos (chr:pos vector)...
getAlleleCountGet alternative allele count for positions of interest
getCoverageGet coverage count for positions of interest
insideCnvsReturns a vector of T/F depending on whether SNPs are in CNV...
mvFitEstimate expression magnitude variance as a function of...
normalizedExpressionNormalize gene expression to a normal reference for...
plotExpHeatmapVisualize expression heatmap by chromosome for...
pointsWithinDetermine if a point is within a range
pos2GRangesFrom data frame of positions to GRanges object
range2GRangesFrom data frame of ranges to GRanges object
JEFworks/badger documentation built on May 7, 2019, 7:40 a.m.