[under development] Simplified TranscriptClean implementation into Nextflow. Nf-core template implementation of modules and workflows are being developed in the repo TranscriptClean-NF.

Carbon Language's main repository: documents, design, implementation, and related tools. (NOTE: Carbon Language is experimental; see README)

Compute Information Accretion of ontology terms from a dataset

A Python Tool for Benchmarking Ontological Classification Methods

A NumPy port of the foldseek code for encoding protein structures to 3di.

A hyperparameter optimization framework

Fast and Accurate ML in 3 Lines of Code

Python package for AutoML on Tabular Data with Feature Engineering, Hyper-Parameters Tuning, Explanations and Automatic Documentation

Ray is an AI compute engine. Ray consists of a core distributed runtime and a set of AI Libraries for accelerating ML workloads.

Fast and customizable framework for automatic ML model creation (AutoML)

Functional sequence annotation, metamorphism and multifunctionality research over proteins

Functional ANnoTAtion based on embedding space SImilArity

programmable access to GM repo

DNABERT_S: Learning Species-Aware DNA Embedding with Genome Foundation Models

🧬 Nucleotide Transformer: Building and Evaluating Robust Foundation Models for Human Genomics

Dataframes powered by a multithreaded, vectorized query engine, written in Rust

Filmes da Barbie - Google Drive

Taxallnomy is a balanced taxonomic tree database based on NCBI Taxonomy that provides taxonomic lineages according to the taxonomic ranks of Linnean classification system.

DeepGO with Fuzzy DL

MXfold2: RNA secondary structure prediction using deep learning with thermodynamic integration

Nucleic Acids Research 2024：RNA-MSM model is an unsupervised RNA language model based on multiple sequences that outputs both embedding and attention map to match different types of downstream tasks.

Modelling the Language of Life - Deep Learning Protein Sequences

Bilingual Language Model for Protein Sequence and Structure

Leveraging BERT and c-TF-IDF to create easily interpretable topics.

A rust / python package to avoid overlap of items such as labels in a graph

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

A Python biomedical relation extraction package that uses a supervised approach (i.e. needs training data).