bioinformatics-pipeline 开源项目推荐（1,077 个）

scipipe /scipipe

Robust, flexible and resource-efficient pipelines using Go and the commandline

grailbio /reflow

A language and runtime for distributed, incremental data processing in the cloud

bacalhau-project /bacalhau

Community-driven, simple, yet powerful framework for fast, cost-effective distributed Compute over Data.

sanger-pathogens /Roary

Rapid large-scale prokaryote pan genome analysis

saketkc /pysradb

用于获取元数据和从 SRA/ENA/GEO 下载数据的软件包

r3fang /SnapATAC

Analysis Pipeline for Single Cell ATAC-seq

lynnlangit /gcp-for-bioinformatics

面向生物信息学研究人员的 GCP

sanger-pathogens /snp-sites

Finds SNP sites from a multi-FASTA alignment file

sanger-pathogens /Artemis

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

sanger-pathogens /circlator

A tool to circularize genome assemblies

flowhub-team /WholeGenomeSequencing-WGS

Whole Genome Sequencing analysis, WGS analysis

nickjcroucher /gubbins

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

stjude-rust-labs /sprocket

A bioinformatics workflow engine built on top of the Workflow Description Language (WDL).

hillerlab /TOGA

TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.

sanger-pathogens /ariba

Antimicrobial Resistance Identification By Assembly

ikeda042 /PhenoPixel

PhenoPixel: A web-based bioimage analysis platform for bacterial single-cell microscopy analytics.

vanheeringen-lab /seq2science

Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.

kundajelab /atac_dnase_pipelines

ATAC-seq and DNase-seq processing pipeline

KarchinLab /open-cravat

A modular annotation tool for genomic variants

ngless-toolkit /ngless

NGLess: NGS with less work