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awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

bayescf

Bayesian inference of mutational cell fractions

breakmer_analysis

ockerized BreaKmer algorithm by Ryan Abo: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4330340/

breakmer_backup

A method to identify structural variation from sequencing data in target regions (Abo et al.)

clonevol

Inferring and visualizing clonal evolution in multi-sample cancer sequencing

dalex

Descriptive mAchine Learning EXplanations

docker-cnacs

🐳 A python 2.7 container with CNACs requirements and db.

facets2n

Algorithm to implement Fraction and Allelic Copy number Estimate from Tumor/normal Sequencing. Package created to test FACETS with both matched and unmatched normal.

fishplot

Create timecourse "fish plots" that show changes in the clonal architecture of tumors

genomics

2017 AI & Genomics Hackathon in San Francisco

genomics_utils

Utilities for genomics and NGS data analysis

hiraksarkar.github.io

integrate-vis

Tool for comprehensive gene fusion visualization

kmeans

Implementation of K-means clustering algorithm with Spark and application on earthquake data

minimal-mistakes

:triangular_ruler: Jekyll theme for building a personal site, blog, project documentation, or portfolio.

numbat

Haplotype-aware CNV analysis from scRNA-Seq

phangorn

Phylogenetic analysis in R

redefining_cancer_treatment

Applying Bayesian methods to Kaggle competition "Personalized Medicine: Redefining Cancer Treatment"

rtensor

rTensor v1.2

sciclone

An R package for inferring the subclonal architecture of tumors

scrna-seq_notes

A list of scRNA-seq analysis tools

teng-gao.github.io

teng-gao.github.io_mm

https://teng-gao.github.io/

teng-gao.github.io_old

Website

treehmm

Implementation of treeHMM for CNV detection

website

Personal website

website-new