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adeft

Utility for disambiguating abbreviations in biological texts

arviz

Exploratory analysis of Bayesian models with Python

biomappings

Community curated equivalences and related mappings between named biological entities

boost

Super-project for modularized Boost

causal_precedence_training

Scripts for assembling datasets for causal precedence prediction

covid-19

Scripts and other utilities relevant to the CORD-19 dataset

cpython

The Python programming language

crowdin_integration_test_website

Sandbox for testing Crowdin integration

cupy

NumPy & SciPy for GPU

cython

The most widely used Python to C compiler

devdocs

Scipy dev version docs, built automatically on Travis-CI

emmaa

Ecosystem of Machine-maintained Models with Automated Analysis

famplex

Resources for grounding biological entities from text and describing their hierarchical relationships.

gilda

Grounding of biomedical named entities with contextual disambiguation

indra

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, produce causal graphs and dynamical models.

indra_apps

indra_db

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 database is the back-end to many of our projects, providing a vast and detailed knowledge base derived from many resources.

indra_db_lite

Work with content from indra_db in a local sqlite database.

interactive_doc_experiments

Experiment with interactive documentation for Python projects

jupyterlite-sphinx

Sphinx extension using JupyterLite to render Notebooks

lapack

LAPACK development repository

liblinear

mae_lasso

Lasso regression with mean absolute error loss function

math

Boost.org math module

mparray

Array API compliant arrays of arbitrary precision types

mpmath

Python library for arbitrary-precision floating-point arithmetic

numpy

The fundamental package for scientific computing with Python.

numpy.org

The NumPy home page

omicsintegrator

This repository is the working directory for the Garnet-Forest bundle of python scripts for analyzing diverse forms of 'omic' data in a network context.

opaque

Outlier Prevalence Analysis for Quantification of Unknown Entities