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batvi

WDL and docker image for running BatVI

cometsdatabase

ctat-mutations

Mutation detection using GATK4 best practices and latest RNA editing filters resources. Works with both Hg38 and Hg19

ctat-splicing

detection of cancer splicing aberrations

ctat-virusintegrationfinder

fflr

Get ESPN fantasy football data in R

honeybadger

HMM-integrated Bayesian approach for detecting CNV and LOH events from single-cell RNA-seq data

infercnv

Inferring CNV from Single-Cell RNA-Seq

infercnvapp

This is an R shiny app created as a user friendly way to run the R package infercnv. Infercnv is used to explore tumor single cell RNA-Seq data to identify evidence for somatic large-scale chromosomal copy number alterations, such as gains or deletions of entire chromosomes or large segments of chromosomes. More information on infercnv can be found on the infercnv Github Page

infercnvngchm

inferCNV interface to using NGCHM next generation heat maps

nf-vif

A Nextflow-based Virus Insertion Finder

ngchmr

An R library for creating Next-Generation Clustered Heat Maps (NG-CHM)

nhlplusminus

An analysis of NHL player plus-minus using python

nhlplusminusr

Basic NHL plus-minus analysis using R

processvcf

rnavariantbenchmarking

code for running alternative rna-based variant detection tools and benchmarking

rvblr

This is a reimplementation of the RVBoost code.

snpir-python

Python implementation of the original SNPiR code

vifi

Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.

viralfusionseq

Accurately discover viral integration events and fusion transcripts

virtect

Detection of viruses from RNA-Seq on human samples

virtect-1

virusbreakend

WDL for running PapenfussLab's VIRUSBreakend

virusfinder2_verse

A copy of VirusFinder2/VERSE, used for identifying viral integrations.