reimandlab

ActivePathways

Integrative pathway enrichment analysis of multivariate omics data

ActiveDriverDB

ActiveDriverDB

ActiveDriverWGSR

ActiveDriverWGSR is an R package for discovery of cancer driver genes and non-coding elements in whole genome sequencing data

CA2M_v2

CA2M: chromatin accessibility and mutations in cancer genomes

needleplot

Another needleplot for mutation data, used by ActiveDriverDB

CA2M

Chromatin accessibility of primary human cancers ties regional mutational processes with tissues of origin (repository for paper)

CNNClassifier

Convolutional Neural Net for Sequence Classification

DPM_publication_code

DPM: code and input files for the publication

lncRNAs_TCGA

Code I have used throughout my Masters analyzing TCGA clinical and RNA-Seq datasets to discover lncRNA prognostic markers

shiny-web-form

A web form created as a shiny app for literature analysis

ActiveDriver

GEP

mExplorer

muts-needle-plot

A needle plot for mutation data

PPI_network_based_gene_type_prediction_model

This is the repository for Reagan (Gen) LI's BCB430 summer project.

reimandlab.github.io

RM2

Regression Models for Localised Mutations

simpsonlab.github.io

plotwistR

rmimp

Predicting the impact of mutations on kinase–substrate phosphorylation

ShinyActivePathways

A shiny web server that performs ActivePathways and display results in Enrichment map