nordhuang

focusCancer

focus the papers of cancer

focusNGS

focus the papers of NGS

statistics-cases-with-R-in-papers

statistics cases with R in papers

linux

linux common commands

Probabilistic-Programming-and-Bayesian-Methods-for-Hackers

aka "Bayesian Methods for Hackers": An introduction to Bayesian methods + probabilistic programming with a computation/understanding-first, mathematics-second point of view. All in pure Python ;)

AfterQC

Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data

bamsurgeon

tools for adding mutations to existing .bam files, used for testing mutation callers

bcbio-nextgen

Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis

bcftools

This is the official development repository for BCFtools. To compile, the develop branch of htslib is needed: git clone --branch=develop git://github.com/samtools/htslib.git htslib

cnvkit

Copy number variant detection from targeted DNA sequencing

ctdna_papers

papers collections of cancer detected from plasma

delly

DELLY: Structural variant discovery by integrated paired-end and split-read analysis

Duplex-Sequencing

echarts

A powerful, interactive charting and visualization library for browser

ENAR2016

Introduction to High Throughput Data Analysis Using R / Bioconductor

fastqPaper

I collect public fastq records in peer papers

focusFlask

focusMath

htslib

C library for high-throughput sequencing data formats

ISLR_labs

<<An Introduction to Statistical Learning with Applications in R>> lab codes

kubernetes

Production-Grade Container Scheduling and Management

latex-template-collection

A collection of different LaTeX templates (cv, invoices, timesheets, letters, etc.).

mutect-tool

MutScan

Detect important mutations by scanning FastQ files directly

nordhuang.github.io

papers_and_datas_and_R

pileup2base

Parse samtools pileup file to get how many bases and what kind of bases are called

samtools

Tools (written in C using htslib) for manipulating next-generation sequencing data

smlDatas

statistical machine learning Data sets for exercising

statistics_and_tips