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ngb

New Genome Browser (NGB) - a Web - based NGS data viewer with unique Structural Variations (SVs) visualization capabilities, high performance, scalability, and cloud data support做bam可视化的，支持docker，前端做的比igv好，主要是拿来做SV结构变异的可视化分析的

ngs-pipe

NGS-pipe: next-generation sequencing pipelines for precision oncology

ngscheckmate

Software program for checking sample matching for NGS data检查两个数据是否来自于同一个样本

ngsutils

Tools for next-generation sequencing analysis

nucleosome_ctdna

Inferring expressed genes by whole-genome sequencing of plasma DNA

obonet

OBO-formatted ontologies → networkx (Python 3)这个模块比另外一个好，方法多一点

odoo

Odoo. Open Source Apps To Grow Your Business.一个开源的ERP+信息管理系统，可以试试。

oncokb-annotator

Annotates variants in MAF with OncoKB annotation.这个软件是MSK做的，用来注释他们出的那个oncokb数据库

optitype

Precision HLA typing from next-generation sequencing data

pathos

PathOS is a decision support tool for NGS variants

pcgr

Personal Cancer Genome Reporter (PCGR)肿瘤报告自动化解决方案

peddy

genotype :: ped correspondence check, ancestry check, sex check. directly, quickly on VCF

pedigreejs

A web tool for building pedigrees, https://ccge-boadicea.github.io/pedigreejs/，一个做家系图的js插件

phylowgs

Application for inferring subclonal composition and evolution from whole-genome sequencing data.

pileup.js

Interactive in-browser track viewer这个和igv.js有点像

pileup2base

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

pipeline-builder

Pipeline Builder is a JavaScript library for visualizing and constructing bioinformatics workflows, using Workflow Description Language (WDL)WDL流程可视化

plenv

Perl binary manager一个perl多版本管理工具

plotly.js

The open source JavaScript graphing library that powers plotly

prokka

:zap: :aquarius: Rapid prokaryotic genome annotation

pronto

本体论，obo文件解析，不过没有leaf to root这种方法，另外一个模块有，不过这个支持owl，可以用这个模块吧owl转换为obo，再用另外一个模块

putty-color-themes

PUTTY Color Themes/putty软件主题设置

puzzle

Variant caller GUI + genetic disease analysis

pvactools

pyauto

《python自动化运维：技术与最佳实践》书中示例及案例源码

pyclone

Probabilistic model for inferring clonal population structure from deep NGS sequencing.肿瘤亚克隆-进化分析,可以配合Sequenza用

pyensembl

Python interface to ensembl reference genome metadata (exons, transcripts, etc...)

pyloh

Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity可以做肿瘤纯度的分析

python-docx-template

Use a docx as a jinja2 template

qiaseq-dna

example code for processing reads from QIAGEN QIAseq DNA enrichment kits