R package citation, R package reverse dependencies, R package scholars, install an r package from GitHub hy is package acceptance pending why is package undeliverable amazon why is package on hold dhl tour packages why in r package r and r package full form why is r free why r is bad which r package to install which r package has which r package which r package version which r package readxl which r package ggplot which r package fread which r package license where is package.json where is package-lock.json where is package.swift where is package explorer in eclipse where is package where is package manager unity where is package installer android where is package manager console in visual studio who r package which r package to install which r package version who is package who is package deal who is package design r and r package full form r and r package meaning what r package has what package r what is package in java what is package what is package-lock.json what is package in python what is package.json what is package installer do r package can't install r packages r can't find package r can't load package can't load xlsx package r can't install psych package r can't install sf package r Write if else in NONMEM pk pd
Canopy
View on CRAN: Click
here
Download and install Canopy package within the R console
Install from CRAN:
install.packages("Canopy")
Install from Github:
library("remotes")
install_github("cran/Canopy") Install by package version:
library("remotes")
install_version("Canopy", "1.3.0") Attach the package and use:
library("Canopy")
Maintained by
Yuchao Jiang
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2015-10-29
Latest Update: 2017-12-18
Description:
A statistical framework and computational procedure for identifying
the sub-populations within a tumor, determining the mutation profiles of each
subpopulation, and inferring the tumor's phylogenetic history. The input are
variant allele frequencies (VAFs) of somatic single nucleotide alterations
(SNAs) along with allele-specific coverage ratios between the tumor and matched
normal sample for somatic copy number alterations (CNAs). These quantities can
be directly taken from the output of existing software. Canopy provides a
general mathematical framework for pooling data across samples and sites to
infer the underlying parameters. For SNAs that fall within CNA regions, Canopy
infers their temporal ordering and resolves their phase. When there are
multiple evolutionary configurations consistent with the data, Canopy outputs
all configurations along with their confidence assessment.
How to cite:
Yuchao Jiang (2015). Canopy: Accessing Intra-Tumor Heterogeneity and Tracking Longitudinal and Spatial Clonal Evolutionary History by Next-Generation Sequencing. R package version 1.3.0, https://cran.r-project.org/web/packages/Canopy. Accessed 08 Aug. 2026.
Previous versions and publish date:
Other packages that cited Canopy R package
View Canopy citation profile
Other R packages that Canopy depends,
imports, suggests or enhances
Complete documentation for Canopy
Functions, R codes and Examples using
the Canopy R package
Some associated functions: AML43 . MDA231 . MDA231_sampchain . MDA231_tree . addsamptree . canopy.BIC . canopy.cluster.Estep . canopy.cluster.Mstep . canopy.cluster . canopy.output . canopy.plottree . canopy.post . canopy.sample.cluster.nocna . canopy.sample.cluster . canopy.sample.nocna . canopy.sample . getCMCm . getCZ . getQ . getVAF . getZ . getclonalcomposition . getlikelihood . getlikelihood.sna . initialP . initialcna . initialcnacopy . initialsna . sampP . sampcna . sampcnacopy . sampsna.cluster . sampsna . sortcna . toy . toy2 . toy3 .
Some associated R codes: addsamptree.R . canopy.BIC.R . canopy.cluster.Estep.R . canopy.cluster.Mstep.R . canopy.cluster.R . canopy.output.R . canopy.plottree.R . canopy.post.R . canopy.sample.R . canopy.sample.cluster.R . canopy.sample.cluster.nocna.R . canopy.sample.nocna.R . getCMCm.R . getCZ.R . getQ.R . getVAF.R . getZ.R . getclonalcomposition.R . getlikelihood.R . getlikelihood.sna.R . initialP.R . initialcna.R . initialcnacopy.R . initialsna.R . sampP.R . sampcna.R . sampcnacopy.R . sampsna.R . sampsna.cluster.R . sortcna.R . Full Canopy package functions and examples
Downloads during the last 30 days
Today's Hot Picks in Authors and Packages
FastGaSP
Implements fast and exact computation of Gaussian stochastic process with the Matern kernel using fo ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Mengyang Gu (view profile)
box
A modern module system for R. Organise code into hierarchical,
composable, reusable modules, and us ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Konrad Rudolph (view profile)
skewt
Density, distribution function, quantile function and random generation for the skewed t distributio ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Robert King (view profile)
productplots
Framework for visualising tables of counts, proportions
and probabilities. The framework is called ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Hadley Wickham (view profile)
Morpho
A toolset for Geometric Morphometrics and mesh processing. This
includes (among other stuff) mesh d ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Stefan Schlager (view profile)
nextGenShinyApps
Nove responsive tools for designing and developing 'Shiny' dashboards and applications. The scripts ...
Download / Learn more Package Citations See dependency
Download / Learn more Package Citations See dependency
Maintainer: Obinna Obianom (view profile)
28,083
R Packages
239,283
Dependencies
74,752
Author Associations
28,084
Publication Badges
