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‎README.md

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# USCbiostats R packages
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As of 2023-10-31, the packages listed here have been cited **131** times
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As of 2023-11-03, the packages listed here have been cited **134** times
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(source: Google Scholar).
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| Name | Description | Citations |
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| [**causnet**](https://github.com/USCbiostats/causnet) | What the Package Does (One Line, Title Case) | |
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| [**cit**](https://github.com/USCbiostats/cit) | Causal Inference Test [![CRAN status](https://www.r-pkg.org/badges/version/cit)](https://CRAN.R-project.org/package=cit) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/cit)](https://cran.r-project.org/package=cit) [![status](https://tinyverse.netlify.com/badge/cit)](https://CRAN.R-project.org/package=cit) | [25](https://scholar.google.com/scholar?cites=2897292192206854993&hl=en) |
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| [**fdrci**](https://github.com/USCbiostats/fdrci) | Permutation-Based FDR Point and Confidence Interval Estimation [![CRAN status](https://www.r-pkg.org/badges/version/fdrci)](https://CRAN.R-project.org/package=fdrci) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/fdrci)](https://cran.r-project.org/package=fdrci) [![status](https://tinyverse.netlify.com/badge/fdrci)](https://CRAN.R-project.org/package=fdrci) | [28](https://scholar.google.com/scholar?hl=en&cites=6606625444967735035) |
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| [**fmcmc**](https://github.com/USCbiostats/fmcmc) | A friendly MCMC framework [![CRAN status](https://www.r-pkg.org/badges/version/fmcmc)](https://CRAN.R-project.org/package=fmcmc) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/fmcmc)](https://cran.r-project.org/package=fmcmc) [![status](https://tinyverse.netlify.com/badge/fmcmc)](https://CRAN.R-project.org/package=fmcmc) | [7](https://scholar.google.com/scholar?cites=18235425292318567621&hl=en) |
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| [**fmcmc**](https://github.com/USCbiostats/fmcmc) | A friendly MCMC framework [![CRAN status](https://www.r-pkg.org/badges/version/fmcmc)](https://CRAN.R-project.org/package=fmcmc) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/fmcmc)](https://cran.r-project.org/package=fmcmc) [![status](https://tinyverse.netlify.com/badge/fmcmc)](https://CRAN.R-project.org/package=fmcmc) | [9](https://scholar.google.com/scholar?cites=18235425292318567621&hl=en) |
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| [**gesso**](https://github.com/USCbiostats/gesso) | Hierarchical GxE Interactions in a Regularized Regression Model [![CRAN status](https://www.r-pkg.org/badges/version/gesso)](https://CRAN.R-project.org/package=gesso) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/gesso)](https://cran.r-project.org/package=gesso) [![status](https://tinyverse.netlify.com/badge/gesso)](https://CRAN.R-project.org/package=gesso) | [3](https://scholar.google.com/scholar?cites=PbkWjCSETP0J&hl=en) |
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| [**GxEScanR**](https://github.com/USCbiostats/GxEScanR) | R version of GxEScan [![CRAN status](https://www.r-pkg.org/badges/version/GxEScanR)](https://CRAN.R-project.org/package=GxEScanR) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/GxEScanR)](https://cran.r-project.org/package=GxEScanR) [![status](https://tinyverse.netlify.com/badge/GxEScanR)](https://CRAN.R-project.org/package=GxEScanR) | |
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| [**HiLDA**](https://github.com/USCbiostats/HiLDA) | An R package for inferring the mutational exposures difference between groups[![](https://img.shields.io/badge/Bioconductor%20version-1.0.0-green.svg)](https://www.bioconductor.org/packages/HiLDA)[![](https://img.shields.io/badge/download-4376/total-blue.svg)](https://bioconductor.org/packages/stats/bioc/HiLDA) | [6](https://scholar.google.com/scholar?cites=2767354745053140554&hl=en) |
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| [**HiLDA**](https://github.com/USCbiostats/HiLDA) | An R package for inferring the mutational exposures difference between groups[![](https://img.shields.io/badge/Bioconductor%20version-1.0.0-green.svg)](https://www.bioconductor.org/packages/HiLDA)[![](https://img.shields.io/badge/download-4397/total-blue.svg)](https://bioconductor.org/packages/stats/bioc/HiLDA) | [6](https://scholar.google.com/scholar?cites=2767354745053140554&hl=en) |
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| [**hJAM**](https://github.com/USCbiostats/hJAM) | hJAM is a hierarchical model which unifies the framework of Mendelian Randomization and Transcriptome-wide association studies. [![CRAN status](https://www.r-pkg.org/badges/version/hJAM)](https://CRAN.R-project.org/package=hJAM) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/hJAM)](https://cran.r-project.org/package=hJAM) [![status](https://tinyverse.netlify.com/badge/hJAM)](https://CRAN.R-project.org/package=hJAM) | [4](https://scholar.google.com/scholar?cites=5_2ea7Z8nBIJ&hl=en) |
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| [**iMutSig**](https://github.com/USCbiostats/iMutSig) | A web application to identify the most similar mutational signature using shiny | [1](https://scholar.google.com/scholar?cites=16599818872657505515&hl=en) |
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| [**jsPhyloSVG**](https://github.com/USCbiostats/jsPhyloSVG) | htmlwidgets for the jsPhyloSVG JavaScript library | |
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| [**pfamscanr**](https://github.com/USCbiostats/pfamscanr) | An R client for EMBL-EBI’s PfamScan API | |
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| [**polygons**](https://github.com/USCbiostats/polygons) | Flexible functions for computing polygons coordinates in R | |
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| [**rphyloxml**](https://github.com/USCbiostats/rphyloxml) | Read and write phyloXML files in R | |
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| [**selectKSigs**](https://github.com/USCbiostats/selectKSigs) | Selection of K in finding the number of mutational signatures[![](https://img.shields.io/badge/Bioconductor%20version-1.0.0-green.svg)](https://www.bioconductor.org/packages/selectKSigs)[![](https://img.shields.io/badge/download-3226/total-blue.svg)](https://bioconductor.org/packages/stats/bioc/selectKSigs) | |
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| [**selectKSigs**](https://github.com/USCbiostats/selectKSigs) | Selection of K in finding the number of mutational signatures[![](https://img.shields.io/badge/Bioconductor%20version-1.0.0-green.svg)](https://www.bioconductor.org/packages/selectKSigs)[![](https://img.shields.io/badge/download-3243/total-blue.svg)](https://bioconductor.org/packages/stats/bioc/selectKSigs) | |
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| [**slurmR**](https://github.com/USCbiostats/slurmR) | slurmR: A Lightweight Wrapper for Slurm [![CRAN status](https://www.r-pkg.org/badges/version/slurmR)](https://CRAN.R-project.org/package=slurmR) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/slurmR)](https://cran.r-project.org/package=slurmR) [![status](https://tinyverse.netlify.com/badge/slurmR)](https://CRAN.R-project.org/package=slurmR) | [5](https://scholar.google.com/scholar?cites=2044081763350723149&hl=en) |
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| [**xrnet**](https://github.com/USCbiostats/xrnet) | R Package for Hierarchical Regularized Regression to Incorporate External Data [![CRAN status](https://www.r-pkg.org/badges/version/xrnet)](https://CRAN.R-project.org/package=xrnet) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/xrnet)](https://cran.r-project.org/package=xrnet) [![status](https://tinyverse.netlify.com/badge/xrnet)](https://CRAN.R-project.org/package=xrnet) | [1](https://scholar.google.com/scholar?cites=12362903479655163477&hl=en) |
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| [**xtune**](https://github.com/USCbiostats/xtune) | An R package for Lasso and Ridge Regression with differential penalization based on prior knowledge [![CRAN status](https://www.r-pkg.org/badges/version/xtune)](https://CRAN.R-project.org/package=xtune) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/xtune)](https://cran.r-project.org/package=xtune) [![status](https://tinyverse.netlify.com/badge/xtune)](https://CRAN.R-project.org/package=xtune) | [19](https://scholar.google.com/scholar?cites=12002990865154112222&hl=en) |
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| [**xtune**](https://github.com/USCbiostats/xtune) | An R package for Lasso and Ridge Regression with differential penalization based on prior knowledge [![CRAN status](https://www.r-pkg.org/badges/version/xtune)](https://CRAN.R-project.org/package=xtune) [![CRAN downloads](http://cranlogs.r-pkg.org/badges/grand-total/xtune)](https://cran.r-project.org/package=xtune) [![status](https://tinyverse.netlify.com/badge/xtune)](https://CRAN.R-project.org/package=xtune) | [20](https://scholar.google.com/scholar?cites=12002990865154112222&hl=en) |
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To update this list, modify the file [packages.csv](packages.csv). The
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