morrislab/PAN-cODE morrislab/PAN-cODE

  • Stars
    star
    1
  • Language
    Jupyter Notebook
  • License
    MIT License
  • Created over 2 years ago
  • Updated over 2 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
morrislab/PAN-cODE
github

morrislab

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

More Repositories

1

phylowgs

Application for inferring subclonal composition and evolution from whole-genome sequencing data.
Python
107
star
2

TrackSig

A framework to infer mutational signatures in cancer over time
R
53
star
3

qapa

RNA-seq Quantification of Alternative Polyadenylation
Python
42
star
4

pairtree

Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneity. Pairtree focuses on scaling to many more cancer samples and cancer cell subpopulations than other algorithms, and on producing concise and informative interactive characterizations of posterior uncertainty.
Python
35
star
5

mlworkshop

Machine learning workshop presented at GLBIO 2016
Jupyter Notebook
11
star
6

phylosub

Python
10
star
7

submarine

Code for SubMARine.
Python
8
star
8

RNAcompete

Data analysis scripts for RNAcompete.
Perl
7
star
9

rnascan

Python package for scanning RNA sequences with sequence and structure PFMs
Python
5
star
10

TrackSigFreq

R package for TrackSig and TrackSigFreq
R
5
star
11

metient

Jupyter Notebook
4
star
12

orchard

Python
4
star
13

GenomeTrackSig

R
3
star
14

damuta

Tandem signatures of DNA damage and misrepair in cancer
Python
2
star
15

smchet-challenge

Data related to the ICGC-TCGA DREAM Somatic Mutation Calling - Tumour Heterogeneity Challenge.
Python
2
star
16

consensus-bp

Pipeline for creating consensus copy-number aberration (CNA) segmentation (breakpoints) for ICGC Pan Cancer Analysis of Whole Genomes project. Used in paper at https://www.biorxiv.org/content/10.1101/312041v5.
Python
2
star
17

submarine_data

Simulated data SubMARine was evaluated on.
Python
1
star
18

plos-medicine-joint-patterns

Source code for the juvenile idiopathic arthritis joint patterns paper published in PLOS Medicine, 2019.
Python
1
star
19

RNAcompete_classifier

This repository contains the code and data for training the RNAcompete experiment classifier used in Ray et al. 2022
Python
1
star
20

weme

Weighted Median subclonal consensus method
R
1
star