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37-48 of 57

Osmium

Start, stop and monitor applications remotely via a HTTP interface.

High performance computing

Java
API Blueprint

Overture Data Management System

Overture is a collection of open-source, extendable solutions for big-data genomic science that research institutions and individual researchers can use to support their work.

authentication
cloud storage
genomics
+ 2

Java
Shell
Dockerfile
+ 1

Overture Ego

A stateless authorization and user management service.

Data Indexing
Elasticsearch Automation

Java
Shell
Makefile
+ 1

Overture Maestro

Organizing your distributed data into one index.

Data Indexing
Elasticsearch Automation

Java
Groovy
Makefile
+ 1

Overture Score

Transfer data quickly and easily to and from any cloud-based storage system.

Cancer Genomics
Cloud Storage & Transfer

Java
Shell
Makefile
+ 3

Overture Song

Quickly and reliably track genome metadata scattered across multiple Cloud storage systems.

Cancer Genomics
Metadata Management
Metadata Validation

Java
Python
Shell
+ 5

PanTools

PanTools is a pangenomic toolkit for comparative analysis of large number of genomes. It is developed in the Bioinformatics Group of Wageningen University, the Netherlands. Please cite the relevant publication(s) from the list of publications if you use PanTools in your research.

Data Analysis
Gene classification
pangenomics

Java
Snakemake
Python
+ 1

PathVisio

PathVisio is a free open-source software to curate biological pathway models.

bioinformatics
PathVisio
Systems Biology
+ 2

Java
HTML
JavaScript
+ 4

PhenoTips

PhenoTips is a software tool that makes it easy for clinicians and researchers to draw pedigrees and collect structured phenotype data for patients with genetic disorders.

API
deep phenotyping
genogram
+ 6

Java
JavaScript
HTML
+ 4

QTLTableMiner++

Extract gene-trait associations from scientific literature

Inter-operability & linked data
Text analysis & natural language processing

Java
Shell

RESTful APE

RESTfull API for the APE (Automated Pipeline Explorer) library.

Java
Program synthesis
REST API
+ 1

Java
Dockerfile

Rocket

Rocket is a framework for efficient execution of all-pair applications on heterogeneous platforms.

Big data
GPU
High performance computing
+ 1

Java
Cuda
C++
+ 2