ddclone: Runs the ddClone MCMC-based inference algorithm over the...

In sohrabsa/ddclone: Joint statistical inference of clonal populations from single cell and bulk tumour sequencing data

Description

Runs the ddClone MCMC-based inference algorithm over the genotype and allele-counts of a set of muations and computes point estimates for clustering assignment and cellular prevalences.

Usage

ddclone(dataObj, outputPath = ".", tumourContent = 1,
  numOfIterations = 100, thinning = 1, burnIn, a = 0.01, alpha = 1,
  s = 1, seed = 10, useTraditionalCRP = F, dist.fn = jaccardDist,
  dist.fn.options = NULL, grid.mA = 10, grid.mS = 10, grid.mAlpha = 10)

Arguments

dataObj	The data object, containing genotpe matrix and allele counts
outputPath	a directory where to store the results and temp files

Value

A list containing df the estimated clustering and cellular prevalences; expPath where the results are stored

sohrabsa/ddclone documentation built on May 30, 2019, 6:08 a.m.