@KarchinLab
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KarchinLab

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Top repositories

1

open-cravat

A modular annotation tool for genomic variants
JavaScript
110
star
2

2020plus

Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests
Python
48
star
3

bigmhc

BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity
Jupyter Notebook
32
star
4

mhcnuggets

MHC Class I and Class II neoantigen binding prediction
Python
23
star
5

SCHISM

Subclonal Hierarchy Inference from Somatic Mutations
Python
21
star
6

CHASMplus

Predicts which missense mutations will drive growth of human cancers
Python
11
star
7

probabilistic2020

Simulates somatic mutations, and calls statistically significant oncogenes and tumor suppressor genes based on a randomization-based test
Python
8
star
8

pictograph

A Bayesian hierarchical model to build tumor evolutionary trees
R
5
star
9

CLUMP

CLUstering by Mutation Position
Python
5
star
10

Tokheim_PNAS_2016

Evaluation protocol for computational methods predicting cancer driver genes
Jupyter Notebook
4
star
11

cancerSeqStudy

Analysis of statistical power and false positives for cancer exome sequencing studies
R
4
star
12

HotMAPS_2016

Detects hotspot regions for somatic mutations in 3D protein structures
Python
2
star
13

Tokheim_Cell_Systems_2019

Data analysis for the CHASMplus paper
Jupyter Notebook
2
star
14

opencravat-cwl

Common Workflow Language
2
star
15

NAPA

Python
1
star
16

open-cravat-modules-karchinlab

JavaScript
1
star
17

open-cravat-multiuser

Python
1
star
18

open-cravat-readthedocs

Python
1
star