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USCbiostats

Name Description
AnnoQR R client wrap for AnnoQ API (https://github.com/blueOwl/AnnoQR) CRAN status CRAN downloads status
aphylo Statistical inference of genetic functions in phylogenetic trees CRAN status CRAN downloads status
bayesnetworks C++ program to fit Bayesian networks, illustrated with simulated data CRAN status CRAN downloads status
BinaryDosage Converts VCF files to a binary format CRAN status CRAN downloads status
causnet What the Package Does (One Line, Title Case) CRAN status CRAN downloads status
fdrci Permutation-Based FDR Point and Confidence Interval Estimation CRAN status CRAN downloads status
fmcmc A friendly MCMC framework CRAN status CRAN downloads status
GxEScanR R version of GxEScan CRAN status CRAN downloads status
HiLDA An R package for inferring the mutational exposures difference between groups
hJAM hJAM is a hierarchical model which unifies the framework of Mendelian Randomization and Transcriptome-wide association studies. CRAN status CRAN downloads status
iMutSig A web application to identify the most similar mutational signature using shiny CRAN status CRAN downloads status
jsPhyloSVG htmlwidgets for the jsPhyloSVG JavaScript library CRAN status CRAN downloads status
LUCIDus Latent and Unknown Cluster Analysis using Integrated Data CRAN status CRAN downloads status
MergeBinaryDosage R package for merging binary dosage files CRAN status CRAN downloads status
partition A fast and flexible framework for agglomerative partitioning in R CRAN status CRAN downloads status
pfamscanr An R client for EMBL-EBI’s PfamScan API CRAN status CRAN downloads status
polygons Flexible functions for computing polygons coordinates in R CRAN status CRAN downloads status
rphyloxml Read and write phyloXML files in R CRAN status CRAN downloads status
selectKSigs Selection of K in finding the number of mutational signatures
slurmR slurmR: A Lightweight Wrapper for Slurm CRAN status CRAN downloads status
xrnet R Package for Hierarchical Regularized Regression to Incorporate External Data CRAN status CRAN downloads status
xtune An R package for Lasso and Ridge Regression with differential penalization based on prior knowledge CRAN status CRAN downloads status

USC Division of Biostatistics's Projects

ecigjointmodel icon ecigjointmodel

A joint polytomous logistic regression model for the initiation and cessation of electronic cigarettes and conventional cigarettes with time-dependent covariates in a longitudinal study

epa-ng icon epa-ng

Massively parallel phylogenetic placement of genetic sequences

fdrci icon fdrci

Permutation-Based FDR Point and Confidence Interval Estimation

figi icon figi

All code used in FIGI analyses, plots, documentation, presentations.

geese icon geese

GEne-functional Evolutionary model using SufficiEncy

gesso icon gesso

The package is developed to fit a regularized regression model that we call gesso [G(by)E(la)sso] for the joint selection of gene-environment (GxE) interactions.

git-crash icon git-crash

Happy Scientist Seminar: A Crash course on git

hilda icon hilda

:package: An R package for inferring the mutational exposures difference between groups.

hjam icon hjam

hJAM is a hierarchical model which unifies the framework of Mendelian Randomization and Transcriptome-wide association studies.

imutsig icon imutsig

iMutSig: a web application to identify the most similar mutational signature using shiny

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