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ISOpureR  

Deconvolution of Tumour Profiles
View on CRAN: Click here


Download and install ISOpureR package within the R console
Install from CRAN:
install.packages("ISOpureR")

Install from Github:
library("remotes")
install_github("cran/ISOpureR")

Install by package version:
library("remotes")
install_version("ISOpureR", "1.1.3")



Attach the package and use:
library("ISOpureR")
Maintained by
Paul C Boutros
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2014-11-16
Latest Update: 2019-05-11
Description:
Deconvolution of mixed tumour profiles into normal and cancer for each patient, using the ISOpure algorithm in Quon et al. Genome Medicine, 2013 5:29. Deconvolution requires mixed tumour profiles and a set of unmatched "basis" normal profiles.
How to cite:
Paul C Boutros (2014). ISOpureR: Deconvolution of Tumour Profiles. R package version 1.1.3, https://cran.r-project.org/web/packages/ISOpureR
Previous versions and publish date:
1.0.4 (2014-11-16 22:15), 1.0.8 (2015-01-08 12:47), 1.0.18 (2015-07-24 07:53), 1.0.20 (2016-07-23 08:32), 1.0.21 (2016-08-22 20:33), 1.1.0 (2017-11-10 23:21), 1.1.1 (2018-01-10 21:53), 1.1.2 (2018-05-01 22:21)
Other packages that cited ISOpureR R package
View ISOpureR citation profile
Other R packages that ISOpureR depends, imports, suggests or enhances
Functions, R codes and Examples using the ISOpureR R package
Some associated functions: ISOpure.calculate.tac . ISOpure.model_optimize.cg_code.rminimize . ISOpure.model_optimize.vv.vv_deriv_loglikelihood . ISOpure.model_optimize.vv.vv_loglikelihood . ISOpure.step1.CPE . ISOpure.step2.PPE . ISOpure.util.logsum . ISOpure.util.matlab_greater_than . ISOpure.util.matlab_less_than . ISOpure.util.matlab_log . ISOpure.util.repmat . ISOpureS1.model_core.compute_loglikelihood . ISOpureS1.model_core.new_model . ISOpureS1.model_core.optmodel . ISOpureS1.model_optimize.kappa.kappa_compute_loglikelihood . ISOpureS1.model_optimize.kappa.kappa_deriv_loglikelihood . ISOpureS1.model_optimize.kappa.kappa_loglikelihood . ISOpureS1.model_optimize.mm.mm_deriv_loglikelihood . ISOpureS1.model_optimize.mm.mm_loglikelihood . ISOpureS1.model_optimize.omega.omega_compute_loglikelihood . ISOpureS1.model_optimize.omega.omega_deriv_loglikelihood . ISOpureS1.model_optimize.omega.omega_loglikelihood . ISOpureS1.model_optimize.opt_kappa . ISOpureS1.model_optimize.opt_mm . ISOpureS1.model_optimize.opt_omega . ISOpureS1.model_optimize.opt_theta . ISOpureS1.model_optimize.opt_vv . ISOpureS1.model_optimize.theta.theta_deriv_loglikelihood . ISOpureS1.model_optimize.theta.theta_loglikelihood . ISOpureS1.model_optimize.vv.vv_compute_loglikelihood . ISOpureS2.model_core.compute_loglikelihood . ISOpureS2.model_core.new_model . ISOpureS2.model_core.optmodel . ISOpureS2.model_optimize.cc.cc_deriv_loglikelihood . ISOpureS2.model_optimize.cc.cc_loglikelihood . ISOpureS2.model_optimize.kappa.kappa_compute_loglikelihood . ISOpureS2.model_optimize.kappa.kappa_deriv_loglikelihood . ISOpureS2.model_optimize.kappa.kappa_loglikelihood . ISOpureS2.model_optimize.opt_cc . ISOpureS2.model_optimize.opt_kappa . ISOpureS2.model_optimize.opt_theta . ISOpureS2.model_optimize.opt_vv . ISOpureS2.model_optimize.theta.theta_deriv_loglikelihood . ISOpureS2.model_optimize.theta.theta_loglikelihood . ISOpureS2.model_optimize.vv.vv_compute_loglikelihood . 
Some associated R codes: ISOpure.calculate.tac.R . ISOpure.model_optimize.cg_code.rminimize.R . ISOpure.model_optimize.vv.vv_deriv_loglikelihood.R . ISOpure.model_optimize.vv.vv_loglikelihood.R . ISOpure.step1.CPE.R . ISOpure.step2.PPE.R . ISOpure.util.logsum.R . ISOpure.util.matlab_greater_than.R . ISOpure.util.matlab_less_than.R . ISOpure.util.matlab_log.R . ISOpure.util.repmat.R . ISOpureS1.model_core.compute_loglikelihood.R . ISOpureS1.model_core.new_model.R . ISOpureS1.model_core.optmodel.R . ISOpureS1.model_optimize.kappa.kappa_compute_loglikelihood.R . ISOpureS1.model_optimize.kappa.kappa_deriv_loglikelihood.R . ISOpureS1.model_optimize.kappa.kappa_loglikelihood.R . ISOpureS1.model_optimize.mm.mm_deriv_loglikelihood.R . ISOpureS1.model_optimize.mm.mm_loglikelihood.R . ISOpureS1.model_optimize.omega.omega_compute_loglikelihood.R . ISOpureS1.model_optimize.omega.omega_deriv_loglikelihood.R . ISOpureS1.model_optimize.omega.omega_loglikelihood.R . ISOpureS1.model_optimize.opt_kappa.R . ISOpureS1.model_optimize.opt_mm.R . ISOpureS1.model_optimize.opt_omega.R . ISOpureS1.model_optimize.opt_theta.R . ISOpureS1.model_optimize.opt_vv.R . ISOpureS1.model_optimize.theta.theta_deriv_loglikelihood.R . ISOpureS1.model_optimize.theta.theta_loglikelihood.R . ISOpureS1.model_optimize.vv.vv_compute_loglikelihood.R . ISOpureS2.model_core.compute_loglikelihood.R . ISOpureS2.model_core.new_model.R . ISOpureS2.model_core.optmodel.R . ISOpureS2.model_optimize.cc.cc_deriv_loglikelihood.R . ISOpureS2.model_optimize.cc.cc_loglikelihood.R . ISOpureS2.model_optimize.kappa.kappa_compute_loglikelihood.R . ISOpureS2.model_optimize.kappa.kappa_deriv_loglikelihood.R . ISOpureS2.model_optimize.kappa.kappa_loglikelihood.R . ISOpureS2.model_optimize.opt_cc.R . ISOpureS2.model_optimize.opt_kappa.R . ISOpureS2.model_optimize.opt_theta.R . ISOpureS2.model_optimize.opt_vv.R . ISOpureS2.model_optimize.theta.theta_deriv_loglikelihood.R . ISOpureS2.model_optimize.theta.theta_loglikelihood.R . ISOpureS2.model_optimize.vv.vv_compute_loglikelihood.R . RcppExports.R .  Full ISOpureR package functions and examples
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