516 Open source projects that are alternatives of or similar to workflows

Command line tool to run batch jobs concurrently with ETL framework on AWS or other cloud computing resources

Tibanna helps you run your genomic pipelines on Amazon cloud (AWS). It is used by the 4DN DCIC (4D Nucleome Data Coordination and Integration Center) to process data. Tibanna supports CWL/WDL (w/ docker), Snakemake (w/ conda) and custom Docker/shell command.

Genomics Workflows on AWS

An open source platform for managing and analyzing biomedical big data

Improve the quality of a denovo assembly by scaffolding and gap filling

Temporal service

Multilocus sequence typing by blast using the schemes from PubMLST

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

🚀 A shiny admin interface for django-river built with DRF, Vue & Vuetify

Listen to your to PostgreSQL database in realtime via websockets. Built with Elixir.

Elastic, reproducible, and reusable genomic data science tools from R backed by cloud resources

Assembling the cause of phenotypes and genotypes from NGS data

A programmable, observable and distributed job orchestration system.

workflow engine activity activiti

Data intensive science for everyone.

⤴️ Steep Workflow Management System – Run scientific workflows in the Cloud

Command line utility for manipulating Illumina-generated FastQ files.

Project Manager for NGS data analysis

[Experimental] Workflow Definition Language (WDL) to CWL

Flyte binds together the tools you use into easily defined, automated workflows

A simple finite state machine (FSM) with workflow character where you define your workflows in code.

Clustering scRNAseq by genotypes

The official repository for the AiiDA code

Collection of scripts for bacterial genomics

Finds SNP sites from a multi-FASTA alignment file

Ultrafast sequence typing and gene detection from NGS raw reads

Postier is a Laravel API automation platform to transfer data and to sync apps. You can build workflows with data and actions of multiple apps and apply logics to the data!

The CWL v1.0 user guide

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

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

Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling

Bead-based single-cell atac processing

Nextflow basic tutorial for newbie users

Explore gnomAD datasets on the web

A fast tool for hybrid genome assembly of long and short reads

Temporal Java SDK

Python-based UCSC genome browser snapshot-taker and gallery-maker

📖 Generation and Applications of Knowledge Graphs in Systems and Networks Biology

Big Compute Learning Labs

Examples to get started with IBM Functional Genomics Platform

📜 📒 Place for organization guidelines and workflows

Github action to retrieve branch or tag names with support for all events.

Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.

Business Process eXecution Engine

A Python framework for data processing on GCP.

Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.

Manhattan plot Generator

Finite State Machine porting from Stateless C#

Towards fast and accurate SNP genotyping from whole genome sequencing data for bedside diagnostics.

A library for manipulating bioinformatics sequencing formats in Apache Spark

Analysing Capture Seq Count Data

TheEye Dockers and QuickStart

Contact map analysis for biomolecules; based on MDTraj

CUT&RUN and CUT&Tag data processing and analysis

A simple but powerful state machine implementation.

funsies is a lightweight workflow engine 🔧

Repository for my tutorial course: Grunt.js Web Workflows on LinkedIn Learning and Lynda.com.

A mapping-based pipeline for creating a phylogeny from bacterial whole genome sequences

Introduction to the Command Line for Genomics

Primrose modeling framework for simple production models