INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly…

TrialSynth interprets and integrates clinical trials data from multiple registries in a computable form

Reproducibly download the latest version of various DepMap datasets

INDRA Context Graph Extension

📮 An integrative registry of biological databases, ontologies, and nomenclatures.

A Database-based knowledge back-end built on and for INDRA. The INDRA Database is a service that can be set up by any user with their own content and knowledge access. Our implementation of the dat…

Grounding of biomedical named entities with contextual disambiguation

INDRA-assembled pathways for variant effects

🛣️ Semantic Mapping Reasoning Assembler (SeMRA): tooling for semantic mappings

INDRA-assembled networks of mechanisms between genes sets corresponding to GO terms

A utility build around the HTML assembler to enable easy curation of custom sets of INDRA Statements.

📛 A Python package for using ontologies, terminologies, and biomedical nomenclatures

🪝 What's the latest version for each database?

INDRA applications for the DARPA Panacea project

This repo creates general utilities for our user interfaces.

A package of Vue Components for use in Indralab web services.

Ecosystem of Machine-maintained Models with Automated Analysis

Dependecy Map data analysis using INDRA

Tool for disambiguating acronyms and abbreviations in text for NLP applications

INDRA World Modelers services

Community curated equivalences and related mappings between named biological entities

REST API for querying the network of biochemical mechanisms in the INDRA DB.

A Catlab-compatible implementation of acsets in python.

Scripts and other utilities relevant to the CORD-19 dataset

INDRA projects website

Biological reasoning agents

Tools used for large scale reading, mostly using AWS Batch.

A PyTorch and TorchDrug based deep learning library for drug pair scoring.

Work with content from indra_db in a local sqlite database.