limingxiang

Data-Competition-TopSolution

Data competition Top Solution 数据竞赛top解决方案开源整理

practicalAI-cn

AI实战-practicalAI 中文版

Awesome-Bioinformatics

A curated list of awesome Bioinformatics libraries and software.

applied-computational-genomics

Applied Computational Genomics Course at UU: Spring 2020

ClinSV

Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data

omim

omim database

hmmcopy_utils

Tools for extracting read counts and gc and mappability statistics in preparation for running HMMCopy.

nextgenseq_pipeline

Exome/Capture/RNASeq Pipeline Implementation using snakemake

bcbio-nextgen

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

ohmyzsh

🙃 A delightful community-driven (with 2,400+ contributors) framework for managing your zsh configuration. Includes 300+ optional plugins (rails, git, macOS, hub, docker, homebrew, node, php, python, etc), 140+ themes to spice up your morning, and an auto-update tool that makes it easy to keep up with the latest updates from the community.

pzweuj.github.io

Go to

pileup2vcf

Simple variant caller - Please update to the latest version !

Create_PyClone_input

Python code to transform Sequenza segment output into PyClone input

Awesome-Bioinformatics

A curated list of awesome Bioinformatics libraries and software.

cancerWGS_pipeline

A Snakemake pipeline for calling SSMs and CNVs from matched normal-tumor WGS data

PyLOH

Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity

IRSeq

somatic_pipeline

肿瘤体细胞突变检测流程（组织、cfDNA均可，需要有对照）

ClinCNV

Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data

ngs-main-wes

This is dockerize "somatic paired-WES(Normal-Tumor) pipeline" which is refer to GATK best practice.

Cancer_Study

癌症相关学习内容

Clin-mNGS

Clin-mNGS: Automated pipeline for pathogen detection from clinical metagenomic data

ncbi-genome-download

Scripts to download genomes from the NCBI FTP servers

surpi

SURPI

gatk4-rnaseq-germline-snps-indels

Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools

mixcr

MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.

TRUST4

TCR and BCR assembly from RNA-seq data

RNAseq-workflow

A repository for setting up a RNAseq workflow

phenolyzer

phenotype-based prioritization of candidate genes for human diseases

rnaseq

RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.