README.md

In elkebir-group/phydoser: Design a follow-up single-cell sequencing experiment from bulk sequencing data

phydoser

Overview

phydoser is a package to aid in the design a single-cell sequencing follow-up experiment from a previous bulk sequencing experiment. The main functions of phydoser include:

• phydose determines the number of cells to sequence in a follow-up single-cell experiment
• generateDistFeat finds the distinguishing feature family of each tree in the input set
• CalcU calculates the clonal prevalance matrix
• plotTree plots the tree along with any specified distinguishing features
• ReadJoint reads in an input file into the data structures supported by phydose

Installation

To install phydoser, you will first need to install the devtools package:

install.packages("devtools")

Then you can easily install phydoser from Github:

#development version
devtools::install_github("elkebir-group/phydoser")

Usage

library(phydoser)

phydoser comes with three test datasets that you can use to explore the packages capabilities: AML38, phydata, and multsample.

elkebir-group/phydoser documentation built on July 16, 2020, 4:43 p.m.