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Offline till March 2025; Remind me if I don't respond
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Offline till March 2025; Remind me if I don't respond

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@borevitzlab @biocore @BioJulia @biospectrabysequencing @COMBINE-Canberra @bioconda @IWYP60 @plantimmunity

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35 stars written in Java
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Jenkins automation server

Java 24,799 9,270 Updated Dec 21, 2025

Arduino IDE 1.x

Java 14,503 7,006 Updated Oct 11, 2025

Android application powering the mirror in my house

Java 7,839 660 Updated May 28, 2023

High-quality QR Code generator library in Java, TypeScript/JavaScript, Python, Rust, C++, C.

Java 6,321 1,226 Updated Jan 23, 2025

Fault tolerance and resilience patterns for the JVM

Java 4,292 308 Updated Jun 9, 2024

Zotero plugin to manage your attachments: automatically rename, move, and attach PDFs (or other files) to Zotero items, sync PDFs from your Zotero library to your (mobile) PDF reader (e.g. an iPad,…

Java 4,289 292 Updated Apr 16, 2024

Graphical Java application for managing BibTeX and BibLaTeX (.bib) databases

Java 4,158 3,125 Updated Dec 21, 2025

signal-cli provides an unofficial commandline, JSON-RPC and dbus interface for the Signal messenger.

Java 3,928 353 Updated Dec 10, 2025

I2P is an anonymizing network, offering a simple layer that identity-sensitive applications can use to securely communicate. All data is wrapped with several layers of encryption, and the network i…

Java 2,331 332 Updated Dec 8, 2025

📡 Lightweight GPS Logging Application For Android.

Java 2,324 631 Updated Dec 6, 2025

Stream summarizer and cardinality estimator.

Java 2,263 557 Updated Nov 28, 2019

Official code repository for GATK versions 4 and up

Java 1,895 622 Updated Dec 20, 2025

align and compare tables

Java 879 73 Updated Aug 6, 2025

Command line tool (and API) for diffing Excel Workbooks

Java 846 102 Updated Oct 17, 2023

Jar Jar Links is a utility that makes it easy to repackage Java libraries and embed them into your own distribution.

Java 754 99 Updated May 2, 2024

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

Java 451 116 Updated Jun 25, 2025

MISO: An open-source LIMS for NGS sequencing centres

Java 286 121 Updated Dec 19, 2025

GRIDSS: the Genomic Rearrangement IDentification Software Suite

Java 280 73 Updated May 21, 2025

Maximum entropy modelling of species geographic distributions.

Java 251 98 Updated Jan 11, 2024

UNMAINTAINED please adopt! we can no longer maintain this

Java 232 54 Updated Mar 20, 2017

Text Only Genome Viewer!

Java 230 17 Updated Dec 21, 2025

Not HDF5

Java 193 22 Updated Dec 17, 2025

Mining CRISPRs in Environmental Datasets

Java 116 20 Updated Feb 10, 2023

Simple program to extract data from Access databases into CSV files.

Java 88 23 Updated Apr 8, 2023

MEGAN Community Edition

Java 72 23 Updated Jul 17, 2024

Code for phasing SVs with SNPs

Java 52 3 Updated Mar 27, 2020

A configurable de novo assembly pipeline

Java 28 6 Updated Jun 29, 2016

Fast metagenome analysis toolkit

Java 27 10 Updated Sep 3, 2024

Mapping-free variant caller for short-read Illumina data

Java 20 4 Updated Apr 2, 2020

Faster multispecies coalescent inference using multilocus data

Java 14 5 Updated Aug 13, 2023
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