zhangwl

zhangwl's Stars

• satijalab/seurat

  R toolkit for single cell genomics

  Language:R2.3k910

• maehrlab/thymusatlastools

  R package to accompany our recent Immunity paper on the mouse thymus developmental cell atlas.

  Language:R51

• lmcinnes/umap

  Uniform Manifold Approximation and Projection

  Language:Python7.4k806

• Japrin/STARTRAC

  STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)

  Language:HTML9024

• Japrin/sscClust

  simpler single cell RNAseq data clustering

  Language:R4017

• fritzsedlazeck/Sniffles

  Structural variation caller using third generation sequencing

  Language:Python55892

• gerstung-lab/MutationTimeR

  An R package to time somatic mutations

  Language:R5924

• gerstung-lab/preAML

  Code accompanying Prediction of AML risk in healthy individuals by Abelson, Collord, et al. (2018), Nature, 559:400-404

  Language:HTML82

• genepattern/GISTIC_2.0

  Genomic Identification of Significant Targets in Cancer

  Language:HTML31

• NCBI-Hackathons/Community_Software_Tools_for_NGS

  6126

• PoisonAlien/maftools

  Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.

  Language:R447219

• raerose01/deconstructSigs

  deconstructSigs

  Language:R13847

• abyzovlab/CNVnator

  a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads

  Language:C++21066

• raphael-group/THetA

  Tumor Heterogeneity Analysis (THetA) and THetA2 are algorithms that estimate the tumor purity and clonal/subclonal copy number aberrations directly from high-throughput DNA sequencing data. This repository includes the updated algorithm, called THetA2.

  Language:Python7133

• chrisamiller/RMEmod

  A tool for discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors

  Language:Ruby12

• baezortega/mutree

  A pipeline for phylogenetic tree inference and mutation recurrence discovery

  Language:Java41

• collinmelton/RecurrentMutationStats

  This contains code for statistical analysis of recurrent mutations in whole genome sequencing data.

  Language:R94

• lixiangchun/decipherMutationalSignatures

  Deciphering mutational signatures with alternative algorithms

  Language:Shell74

• TojalLab/signeR

  Language:R133

• RCollins13/CNView

  Visualization and annotation of CNVs from population-scale whole-genome sequencing data

  Language:R6911

• griffithlab/GenVisR

  Genome data visualizations

  Language:R20962

• macarthur-lab/igv_utils

  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.

  Language:JavaScript4811

• griffithlab/pVAC-Seq

  DEPRECATED. This tool has been superseded by https://github.com/griffithlab/pVACtools

  Language:Python6145

• kartong88/Plot-Mutation-Landscape

  A R code to generate a mutational signature plot

  Language:R21