karchinlab Goto Github PK

2020plus

Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests

3d-clump

apm-clustering-icb-manuscript

bigmhc

BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity

bomp

cancerseqstudy

Analysis of statistical power and false positives for cancer exome sequencing studies

chasmplus

Predicts which missense mutations will drive growth of human cancers

civic-opencravat-2023

Code from the 2023 CiVIC Hackathon

clump

CLUstering by Mutation Position

collin-thesis

Thesis: A computational search for mutational drivers of cancer

cravat

cravat-aux

test engine and test cases for CRAVATMuPIT on docker

hla-mediated-tumor-immunogenicity-manuscript

hotmaps

hotmaps_2016

Detects hotspot regions for somatic mutations in 3D protein structures

manta

Structural variant and indel caller for mapped sequencing data

mhcnuggets

MHC Class I and Class II neoantigen binding prediction

moca

Multivariate Organization of Combinatorial Alterations

mosaicsim

fork of MosaicSim developed by CMUSchwartzlab

napa

oc-cloudform

Cloudformation templating for OpenCravat AWS pipeline with automated processing and upload to S3 bucket

open-cravat

A modular annotation tool for genomic variants

open-cravat-cloudqueue

Scalable system for running OpenCRAVAT on GCP

open-cravat-dxapp

open-cravat-dxapp

open-cravat-extras

open-cravat-modules-karchinlab

open-cravat-multiuser

open-cravat-readthedocs

open-cravat-store

open-data-registry

A registry of publicly available datasets on AWS