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Starred repositories

98 stars written in Java
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All Algorithms implemented in Java

Java 66,361 21,275 Updated Oct 10, 2026

Open Source Identity and Access Management For Modern Applications and Services

Java 37,309 9,037 Updated Oct 12, 2026

Event Driven Orchestration & Scheduling Platform for Mission Critical Applications

Java 29,510 3,339 Updated Oct 12, 2026

The official home of the Presto distributed SQL query engine for big data

Java 16,755 5,547 Updated Oct 12, 2026

Access your entire server infrastructure from your local desktop

Java 14,591 568 Updated Oct 12, 2026

OpenRefine is a free, open source power tool for working with messy data and improving it

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Apache NiFi

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RStudio is an integrated development environment (IDE) for R

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Desktop app for managing BibTeX and BibLaTeX (.bib) libraries

Java 4,804 3,638 Updated Oct 12, 2026

Official code repository for GATK versions 4 and up

Java 2,004 628 Updated Oct 10, 2026

Use Log4Shell vulnerability to vaccinate a victim server against Log4Shell

Java 1,692 106 Updated Dec 22, 2021

High Performance Software-Defined Block Storage for container, cloud and virtualisation. Fully integrated with Docker, Kubernetes, Openstack, Proxmox etc.

Java 1,295 96 Updated Oct 8, 2026

HiveMQ MQTT Client is an MQTT 5.0 and MQTT 3.1.1 compatible and feature-rich high-performance Java client library with different API flavours and backpressure support

Java 1,123 189 Updated Oct 9, 2026

A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.

Java 1,080 384 Updated Jul 31, 2026

Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations

Java 768 410 Updated Oct 5, 2026

A public open sourced tool. Log4J scanner that detects vulnerable Log4J versions (CVE-2021-44228, CVE-2021-45046, etc) on your file-system within any application. It is able to even find Log4J inst…

Java 640 96 Updated Mar 10, 2022

A quality control analysis tool for high throughput sequencing data

Java 623 123 Updated Oct 7, 2026

Java utilities for Bioinformatics

Java 526 131 Updated Sep 16, 2026

Automatically exported from code.google.com/p/figtree

Java 490 117 Updated May 17, 2026

Genome-scale protein function classification

Java 393 77 Updated Oct 5, 2026

RTG Tools: Utilities for accurate VCF comparison and manipulation

Java 338 50 Updated May 27, 2025
Java 321 84 Updated Sep 28, 2026

MISO: An open-source LIMS for NGS sequencing centres

Java 314 132 Updated Oct 8, 2026

Visualization and analysis software for Hi-C data -

Java 305 61 Updated Sep 2, 2026

Various algorithms for analysing genomics data

Java 292 71 Updated Oct 12, 2026

GRIDSS: the Genomic Rearrangement IDentification Software Suite

Java 286 73 Updated May 21, 2025

Accurate Species TRee ALgorithm

Java 280 69 Updated Apr 1, 2024

Jasmine: SV Merging Across Samples

Java 262 25 Updated Dec 20, 2024

Not HDF5

Java 212 24 Updated Aug 31, 2026

Simple test framework for Nextflow pipelines

Java 192 45 Updated Apr 27, 2026
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