ChaoXianSen's repositories
Duplex-Seq-Pipeline
A standalone end-to-end data analysis pipeline for Duplex Sequencing
hello-algorithm
🙈🙉🙊 本项目包括：1、我写的三十万字图解算法题典 2、100 张 IT 相关超清思维导图 3、100 篇大厂面经汇总 4、各语言编程电子书 100 本 5、English version supported !!! 🚀🚀 国人项目上榜首不易，右上角助力一波！干就对了，奥利给 ！🚀🚀
AiLearning
AiLearning: 机器学习 - MachineLearning - ML、深度学习 - DeepLearning - DL、自然语言处理 NLP
bactopia
A flexible pipeline for complete analysis of bacterial genomes
bioworkflows
In-house computational biology workflows at Columbia Neurology
cfDNApipe
cfDNApipe: A comprehensive quality control and analysis pipeline for cell-free DNA high-throughput sequencing data
fgbio
Tools for working with genomic and high throughput sequencing data.
gatk
Official code repository for GATK versions 4 and up
gencore
Generate duplex/single consensus reads to reduce sequencing noises and remove duplications
Global-Soil-Virome
Supporting code for manuscript: "Ecological/environmental drivers of global soil virome diversity"
IMPACT-Pipeline
Framework to process and call somatic variation from NGS dataset generated using MSK-IMPACT assay
LLNEXT_pilot
We studied the dynamics of the maternal gut virome during and after pregnancy, the infant gut virome during early life, with a particular focus on the transmission of viral strains from mothers to their infants.
Machine-learning-learning-notes
周志华《机器学习》又称西瓜书是一本较为全面的书籍，书中详细介绍了机器学习领域不同类型的算法(例如：监督学习、无监督学习、半监督学习、强化学习、集成降维、特征选择等)，记录了本人在学习过程中的理解思路与扩展知识点，希望对新人阅读西瓜书有所帮助！
MGV
Supporting code for uncultivated gut virus manuscript
NanoSeq
Analysis software for NanoSeq experiments
NGS-analysis
二代测序数据分析
pathongs
Pathogen NGS Documentary
Pisces
Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
pumpkin-book
《机器学习》（西瓜书）公式推导解析，在线阅读地址：https://datawhalechina.github.io/pumpkin-book
Python-Knowledge-Handbook
Python Knowledge Handbook by Python数据之道， website： http://liyangbit.com/
python3-cookbook
《Python Cookbook》 3rd Edition Translation
samtools
Tools (written in C using htslib) for manipulating next-generation sequencing data
sheng-xin-xiao-bai-yu-2021
历史文档备份（2021年）
single-cell-tutorial
Single cell current best practices tutorial case study for the paper:Luecken and Theis, "Current best practices in single-cell RNA-seq analysis: a tutorial"
sinvict
SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA
TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
UMI-tools
Tools for handling Unique Molecular Identifiers in NGS data sets