Harmonizing pathway databases using Biological Expression Language (BEL)
☆20Jul 1, 2024Updated last year
Alternatives and similar repositories for PathMe
Users that are interested in PathMe are comparing it to the libraries listed below
Sorting:
- A Python framework for integrating biological databases and structured data sources in Biological Expression Language (BEL)☆21Nov 3, 2021Updated 4 years ago
- A Bio2BEL package for integrating pathway-related information from KEGG in BEL☆13Feb 11, 2022Updated 4 years ago
- PyBioPAX: A python implementation of the BioPAX object model☆27May 10, 2024Updated last year
- 📖 Generation and Applications of Knowledge Graphs in Systems and Networks Biology☆32Dec 16, 2019Updated 6 years ago
- JSON-LD Contexts for Bioinformatics Data☆23Mar 25, 2024Updated last year
- PyCTD is a Python software package to query and analyse data from the CTD database☆12Oct 6, 2022Updated 3 years ago
- Single sample pathway analysis tools for omics data☆13Nov 9, 2024Updated last year
- Repository for Apollo-SV ontology. Versioning Apollo-SV independently of the software was made easiest by having it as a separate reposi…☆11Updated this week
- The nPYc-Toolbox defines objects for representing, and implements functions to manipulate and display, metabolic profiling datasets.☆25Aug 8, 2025Updated 7 months ago
- ☆38Jan 14, 2026Updated 2 months ago
- 🗺️ Community curated and predicted equivalences and related mappings between named biological entities that are not available from prima…☆61Mar 9, 2026Updated last week
- Simple analyses and tutorials on the COVID-19 Knowledge Graph☆14Apr 27, 2020Updated 5 years ago
- Python library (C++ backend) for degree-preserving network randomization☆14Oct 14, 2019Updated 6 years ago
- The Ontology for Modeling and Representation of Social Entities☆21Mar 6, 2026Updated 2 weeks ago
- Schema for chemistry ontology classes☆20Mar 12, 2026Updated last week
- Repo for advertising and organizing CIViC unconference/meeting activities☆10Jul 24, 2025Updated 7 months ago
- Learning a genome-wide score of conservation at the functional genomics level between human and mouse☆14Sep 23, 2022Updated 3 years ago
- INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and datab…☆205Feb 23, 2026Updated 3 weeks ago
- Ontology cross-reference and mapping service☆20Dec 12, 2025Updated 3 months ago
- Goslin is the Grammar on succinct lipid nomenclature.☆13Nov 20, 2025Updated 4 months ago
- JavaScript-based pathway viewer and editor☆35Feb 20, 2025Updated last year
- Performs BLAST on compressed proteomic data.☆17Jun 15, 2015Updated 10 years ago
- Vancouver Event and Relation System for Extraction☆11Nov 9, 2017Updated 8 years ago
- Resources for grounding protein families and complexes from text and describing their hierarchical relationships.☆18Jul 10, 2024Updated last year
- COVID-19 Knowledge Graph: a computable, multi-modal, cause-and-effect knowledge model of COVID-19 pathophysiology☆43Jul 5, 2021Updated 4 years ago
- GeneMiner: a tool for extracting phylogenetic markers from next-generation sequencing data☆12Feb 22, 2024Updated 2 years ago
- TFregulomeR reveals transcription factors’ context-specific features and functions☆15Apr 18, 2022Updated 3 years ago
- 👁️🗨️ Scientists often do the same bad stuff. Automate giving deterministic feedback during peer review with determinstic (LLM-free)☆30May 9, 2025Updated 10 months ago
- IRI parsing and IRI-URI conversion utilities, aimed at Node.js☆15Aug 31, 2022Updated 3 years ago
- FELLA: an R package for Metabolomics data enrichment through diffusion☆23Jan 23, 2026Updated last month
- Functional Embedding of Gene Signatures☆48Feb 29, 2024Updated 2 years ago
- The official PySCeS project source code repository.☆40Feb 15, 2026Updated last month
- A Python package for drug discovery by analyzing causal paths on multiscale networks☆28Jul 1, 2024Updated last year
- A tool to annotate human VCF files with PolyPhen2 effect measures☆10Dec 26, 2022Updated 3 years ago
- 📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures☆75Mar 12, 2026Updated last week
- GeneMiner2 is an enhanced version of our previous developments Easy353 and GeneMiner☆15Feb 22, 2026Updated 3 weeks ago
- ☆12Feb 12, 2024Updated 2 years ago
- Parameter estimation for dynamical models using high-performance computing, batch and mini-batch optimizers, and dynamic load balancing.☆22Dec 15, 2025Updated 3 months ago
- OntoBrowser is a web-based application for managing ontologies☆45Feb 15, 2023Updated 3 years ago