Repositories list

• fun-miRBench

  Public
  Benchmarking Python package for functional miRNA target prediction

  Python

  •

  MIT License

  •00 forks in BioGeMT/fun-miRBench•11 star in BioGeMT/fun-miRBench•1515 issues in BioGeMT/fun-miRBench•44 pull requests in BioGeMT/fun-miRBench•Updated Nov 4, 2026Nov 4, 2026

• agentomics-ml

  Public
  Autonomous agentic system for supervised machine learning model development.

  Python

  •

  MIT License

  •77 forks in BioGeMT/agentomics-ml•4040 stars in BioGeMT/agentomics-ml•11 issue in BioGeMT/agentomics-ml•55 pull requests in BioGeMT/agentomics-ml•Updated Nov 3, 2026Nov 3, 2026

• ParaDISM

  Public
  A highly precise algorithmic pipeline for accurate mapping of NGS reads from highly homologous regions

  Python

  •

  MIT License

  •00 forks in BioGeMT/ParaDISM•1111 stars in BioGeMT/ParaDISM•00 issues in BioGeMT/ParaDISM•00 pull requests in BioGeMT/ParaDISM•Updated Oct 31, 2026Oct 31, 2026

• DiscrimAlign

  Public
  Finding substitution weights and gap penalties from pairs of labeled biological sequences

  Jupyter Notebook

  •

  MIT License

  •22 forks in BioGeMT/DiscrimAlign•22 stars in BioGeMT/DiscrimAlign•00 issues in BioGeMT/DiscrimAlign•00 pull requests in BioGeMT/DiscrimAlign•Updated Oct 29, 2026Oct 29, 2026

• varMT

  Public
  Store and retrieve aggregated population frequencies for genomic variants.

  Python

  •00 forks in BioGeMT/varMT•11 star in BioGeMT/varMT•00 issues in BioGeMT/varMT•00 pull requests in BioGeMT/varMT•Updated Oct 19, 2026Oct 19, 2026

• BioPipelines

  Public
  Central repository for deploying, managing, and running BioGeMT research pipelines on shared infrastructure.

  Shell

  •00 forks in BioGeMT/BioPipelines•00 stars in BioGeMT/BioPipelines•00 issues in BioGeMT/BioPipelines•00 pull requests in BioGeMT/BioPipelines•Updated Oct 16, 2026Oct 16, 2026

• genomic_region_annotator

  Public
  Genomic interval annotation tool with transcript-first logic, supporting Ensembl GTFs, relative coordinates, and detailed region classification.

  Python

  •

  MIT License

  •00 forks in BioGeMT/genomic_region_annotator•00 stars in BioGeMT/genomic_region_annotator•00 issues in BioGeMT/genomic_region_annotator•00 pull requests in BioGeMT/genomic_region_annotator•Updated Oct 8, 2026Oct 8, 2026

• PHACT-miRBind

  Public
  Code for the PHACT-miRBind Project

  Python

  •00 forks in BioGeMT/PHACT-miRBind•00 stars in BioGeMT/PHACT-miRBind•00 issues in BioGeMT/PHACT-miRBind•00 pull requests in BioGeMT/PHACT-miRBind•Updated Oct 2, 2026Oct 2, 2026

• Internship-Victoria_Deguara

  Public
  Jupyter Notebook

  •00 forks in BioGeMT/Internship-Victoria_Deguara•00 stars in BioGeMT/Internship-Victoria_Deguara•11 issue in BioGeMT/Internship-Victoria_Deguara•00 pull requests in BioGeMT/Internship-Victoria_Deguara•Updated Sep 15, 2026Sep 15, 2026

• variant_db_benchmarking

  Public
  Python

  •00 forks in BioGeMT/variant_db_benchmarking•00 stars in BioGeMT/variant_db_benchmarking•00 issues in BioGeMT/variant_db_benchmarking•00 pull requests in BioGeMT/variant_db_benchmarking•Updated Sep 14, 2026Sep 14, 2026

• mirna-experiment-search

  Public
  A pipeline to search GEO/SRA for miRNA-related experiments (RNA-seq, CLIP, qPCR, etc.) with support for filters such as species, cell lines, perturbation type, …

  Python

  •

  MIT License

  •00 forks in BioGeMT/mirna-experiment-search•00 stars in BioGeMT/mirna-experiment-search•00 issues in BioGeMT/mirna-experiment-search•00 pull requests in BioGeMT/mirna-experiment-search•Updated Sep 7, 2026Sep 7, 2026

• miRBench_Leaderboard

  Public
  00 forks in BioGeMT/miRBench_Leaderboard•00 stars in BioGeMT/miRBench_Leaderboard•00 issues in BioGeMT/miRBench_Leaderboard•00 pull requests in BioGeMT/miRBench_Leaderboard•Updated Aug 30, 2026Aug 30, 2026

• EPICURE

  Public
  Collaboration with Dr Brendon Scicluna

  Shell

  •00 forks in BioGeMT/EPICURE•00 stars in BioGeMT/EPICURE•00 issues in BioGeMT/EPICURE•00 pull requests in BioGeMT/EPICURE•Updated Aug 12, 2026Aug 12, 2026

• miRBench_paper

  Public
  Python

  •00 forks in BioGeMT/miRBench_paper•44 stars in BioGeMT/miRBench_paper•00 issues in BioGeMT/miRBench_paper•11 pull request in BioGeMT/miRBench_paper•Updated Jun 22, 2026Jun 22, 2026

• miRBind_2.0

  Public
  Working Repository for the MiRbind 2.0 project

  Python

  •

  MIT License

  •11 fork in BioGeMT/miRBind_2.0•44 stars in BioGeMT/miRBind_2.0•00 issues in BioGeMT/miRBind_2.0•22 pull requests in BioGeMT/miRBind_2.0•Updated May 21, 2026May 21, 2026

• DBmiRNA

  Public
  Internal database

  Python

  •

  MIT License

  •00 forks in BioGeMT/DBmiRNA•00 stars in BioGeMT/DBmiRNA•00 issues in BioGeMT/DBmiRNA•00 pull requests in BioGeMT/DBmiRNA•Updated May 18, 2026May 18, 2026

• PostGram

  Public
  Localization-aware modeling of post-transcriptional regulation in 3′UTRs

  Python

  •

  MIT License

  •00 forks in BioGeMT/PostGram•00 stars in BioGeMT/PostGram•00 issues in BioGeMT/PostGram•00 pull requests in BioGeMT/PostGram•Updated Apr 16, 2026Apr 16, 2026

• vcf2db

  Public
  An python application to read VCF files and save it to a PostgreSQL database

  Python

  •

  GNU General Public License v3.0

  •00 forks in BioGeMT/vcf2db•00 stars in BioGeMT/vcf2db•00 issues in BioGeMT/vcf2db•00 pull requests in BioGeMT/vcf2db•Updated Mar 19, 2026Mar 19, 2026

• ScienceInTheCity

  Public
  HTML

  •00 forks in BioGeMT/ScienceInTheCity•00 stars in BioGeMT/ScienceInTheCity•00 issues in BioGeMT/ScienceInTheCity•00 pull requests in BioGeMT/ScienceInTheCity•Updated Sep 19, 2024Sep 19, 2024

• DLforGenomics

  Public
  Jupyter Notebook

  •00 forks in BioGeMT/DLforGenomics•33 stars in BioGeMT/DLforGenomics•00 issues in BioGeMT/DLforGenomics•00 pull requests in BioGeMT/DLforGenomics•Updated Jun 13, 2024Jun 13, 2024

• templates

  Public
  Coding Templates and Best Practices

  Python

  •00 forks in BioGeMT/templates•00 stars in BioGeMT/templates•00 issues in BioGeMT/templates•00 pull requests in BioGeMT/templates•Updated May 14, 2024May 14, 2024

• MALTAomics-Summer-School

  Public
  Jupyter Notebook

  •00 forks in BioGeMT/MALTAomics-Summer-School•22 stars in BioGeMT/MALTAomics-Summer-School•00 issues in BioGeMT/MALTAomics-Summer-School•00 pull requests in BioGeMT/MALTAomics-Summer-School•Updated Oct 18, 2023Oct 18, 2023

• HybriDetector

  Public
  R

  •

  Apache License 2.0

  •33 forks in BioGeMT/HybriDetector•00 stars in BioGeMT/HybriDetector•00 issues in BioGeMT/HybriDetector•00 pull requests in BioGeMT/HybriDetector•Updated Sep 3, 2023Sep 3, 2023