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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 25,172 9,454 Updated Apr 4, 2026

Arduino IDE 1.x

Java 14,558 6,985 Updated Oct 11, 2025

Android application powering the mirror in my house

Java 7,828 655 Updated May 28, 2023

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

Java 6,495 1,253 Updated Jan 23, 2025

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

Java 4,396 398 Updated Apr 4, 2026

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 4,318 291 Updated Apr 16, 2024

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

Java 4,310 3,320 Updated Apr 4, 2026

Fault tolerance and resilience patterns for the JVM

Java 4,308 309 Updated Dec 28, 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 2,483 342 Updated Apr 4, 2026

📡 Lightweight GPS Logging Application For Android.

Java 2,464 639 Updated Apr 2, 2026

Stream summarizer and cardinality estimator.

Java 2,266 556 Updated Nov 28, 2019

Official code repository for GATK versions 4 and up

Java 1,929 625 Updated Apr 5, 2026

align and compare tables

Java 902 76 Updated Mar 17, 2026

Command line tool (and API) for diffing Excel Workbooks

Java 852 101 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 760 99 Updated May 2, 2024

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

Java 462 118 Updated Mar 20, 2026

MISO: An open-source LIMS for NGS sequencing centres

Java 296 125 Updated Apr 2, 2026

GRIDSS: the Genomic Rearrangement IDentification Software Suite

Java 282 73 Updated May 21, 2025

Maximum entropy modelling of species geographic distributions.

Java 262 99 Updated Jan 11, 2024

Text Only Genome Viewer!

Java 234 17 Updated Apr 4, 2026

UNMAINTAINED please adopt! we can no longer maintain this

Java 233 53 Updated Mar 20, 2017

Not HDF5

Java 201 24 Updated Apr 3, 2026

Mining CRISPRs in Environmental Datasets

Java 123 20 Updated Feb 10, 2023

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

Java 90 22 Updated Apr 8, 2023

MEGAN Community Edition

Java 74 23 Updated Jul 17, 2024

Code for phasing SVs with SNPs

Java 54 3 Updated Mar 27, 2020

A configurable de novo assembly pipeline

Java 29 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 15 5 Updated Aug 13, 2023
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