Repositories list

• BioUML

  Public
  BioUML platform

  Java

  •

  GNU Affero General Public License v3.0

  •0•6•0•0•Updated Mar 10, 2025Mar 10, 2025

• JPhysiCell

  Public
  BioFVM ported to Java

  Java

  •0•0•0•0•Updated Mar 6, 2025Mar 6, 2025

• genome-browser

  Public
  Java

  •

  GNU Affero General Public License v3.0

  •0•0•0•0•Updated Mar 3, 2025Mar 3, 2025

• access

  Public
  Library for uniform access to heterogenous biological and other data

  Java

  •0•0•0•0•Updated Feb 24, 2025Feb 24, 2025

• util

  Public
  Java

  •0•0•0•0•Updated Feb 24, 2025Feb 24, 2025

• pom

  Public
  Parent POM file for other Java projects

  MIT License

  •0•0•0•0•Updated Feb 24, 2025Feb 24, 2025

• genome-browser-examples

  Public
  Test data and examples for genome browser

  0•0•0•0•Updated Feb 20, 2025Feb 20, 2025

• pybiouml

  Public
  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated Jan 22, 2025Jan 22, 2025

• rtree

  Public
  Small library to make genome interval overlap queries using memory efficient rtree.

  Java

  •0•0•0•0•Updated Sep 11, 2024Sep 11, 2024

• graphics

  Public
  Graphics primitives to build complex views

  Java

  •1•0•0•1•Updated Aug 23, 2024Aug 23, 2024

• graph-layout

  Public
  Graph definition and graph layout algorithms

  Java

  •1•0•0•0•Updated Aug 23, 2024Aug 23, 2024

• exception

  Public
  Extension of exception for more convinient logging

  Java

  •0•0•0•0•Updated Aug 22, 2024Aug 22, 2024

• jobcontrol

  Public
  Provides JobControl functionality for long time performed functions

  Java

  •1•0•0•0•Updated Aug 22, 2024Aug 22, 2024

• lims-docs

  Public
  Python

  •

  GNU Affero General Public License v3.0

  •0•0•0•0•Updated May 11, 2024May 11, 2024

• BioUML-docs

  Public
  Multilingual documentation for BioUML platform

  Python

  •

  GNU Affero General Public License v3.0

  •0•1•0•0•Updated Apr 21, 2024Apr 21, 2024

• bioumlsim

  Public
  Python interface to BioUML numeric simulators

  Python

  •

  MIT License

  •0•0•0•0•Updated Jul 21, 2023Jul 21, 2023

• Targeted-Sequencing

  Public
  HTML

  •0•0•0•0•Updated Jan 27, 2023Jan 27, 2023

• SNP-and-Structural-Variations-Analysis

  Public
  HTML

  •0•0•0•0•Updated Jan 27, 2023Jan 27, 2023

• Epigenetics-Analysis

  Public
  HTML

  •0•0•0•0•Updated Jan 27, 2023Jan 27, 2023

• De-Novo-Genome-Assembly

  Public
  WDL

  •0•0•0•0•Updated Jan 27, 2023Jan 27, 2023

• sequencer

  Public
  0•0•0•0•Updated Jan 25, 2023Jan 25, 2023

• muscle

  Public
  FreeMarker

  •

  MIT License

  •1•0•0•31•Updated Dec 30, 2022Dec 30, 2022

• pilot

  Public
  Pilot for cluster nodes to accompany complex tasks using Camunda workflows

  Java

  •0•0•0•0•Updated Nov 28, 2021Nov 28, 2021

• gtrd-docs

  Public
  Documentation for GTRD database

  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 22, 2021Sep 22, 2021

• biostore-api

  Public
  Java

  •0•0•0•1•Updated Oct 12, 2020Oct 12, 2020

• covid-19

  Public
  Agent based model for covid-19

  Java

  •

  MIT License

  •0•0•0•0•Updated May 7, 2020May 7, 2020

• muscle_data

  Public
  some data for muscle database

  MIT License

  •0•0•0•0•Updated Nov 28, 2019Nov 28, 2019

• biblio3

  Public
  Java

  •0•0•0•0•Updated Apr 26, 2019Apr 26, 2019

• biblio-chrome-extension

  Public
  JavaScript

  •0•0•0•0•Updated May 7, 2018May 7, 2018

• cpics

  Public
  ChIP-seq peak caller

  expectation-maximizationchip-seqpeak-caller

  C

  •0•0•0•0•Updated Mar 22, 2017Mar 22, 2017