README.md
In dmoskowitz/mavric: Measuring Association between Variance and Covariates
mavric
MAVRIC quantifies the percentage of variance due to each experimental covariate in genomics data. The method further provides estimates of confounding effects and nonparametric statistical testing of differential counts. Details are provided in a preprint available on bioRxiv, with an associated implementation in R provided here.
Installation
MAVRIC can be loaded into R using the load_all function in the devtools R package, directing the function at the base directory of the package. The requirements for MAVRIC are enumerated in the DESCRIPTION file; once those dependencies have been installed within R, the package should load within seconds. MAVRIC has been evaluated on Ubuntu 14.04 (Trusty Tahr).
Usage
The primary user-facing function in the package is estVC, which performs all the calculations underlying the algorithm and returns the above-described quantification and differential analysis. Additionally, plotPCs and plotVars offer visualizations of the results. All three functions have help pages within R describing their parameters and use in greater detail. The help page for estVC includes an example for running all three functions.
dmoskowitz/mavric documentation built on May 29, 2019, 3:04 a.m.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
mavric
MAVRIC quantifies the percentage of variance due to each experimental covariate in genomics data. The method further provides estimates of confounding effects and nonparametric statistical testing of differential counts. Details are provided in a preprint available on bioRxiv, with an associated implementation in R provided here.
Installation
MAVRIC can be loaded into R using the load_all function in the devtools R package, directing the function at the base directory of the package. The requirements for MAVRIC are enumerated in the DESCRIPTION file; once those dependencies have been installed within R, the package should load within seconds. MAVRIC has been evaluated on Ubuntu 14.04 (Trusty Tahr).
Usage
The primary user-facing function in the package is estVC, which performs all the calculations underlying the algorithm and returns the above-described quantification and differential analysis. Additionally, plotPCs and plotVars offer visualizations of the results. All three functions have help pages within R describing their parameters and use in greater detail. The help page for estVC includes an example for running all three functions.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.