Exploring Evolution-aware & free protein language models as protein function predictors

benchmark pytorch contact-prediction stability multiple-sequence-alignment protein-annotation function-prediction protein-classification alphafold protein-language-model alphafold2 fitness-prediction zero-shot-prediction msa-construction msa-transformer esm1b remote-homology-detection metal-ion-binding

• Updated Sep 28, 2024
• Python

Annotate genomics variations of hg19 by using a BED format database, which construct from NCBI annotation release 104

annotation-tool variant-annotation hgvs human-variation annotate-genomics-variations function-prediction

• Updated Jul 14, 2026
• Perl

[Briefings in Bioinformatics'20] Integrating multi-network topology for gene function prediction using deep neural networks

bioinformatics function-prediction

• Updated Sep 5, 2019
• Python

🧬 Fine-Tuning Large Language and Protein Models on a single T4 GPU via Distillation, Quantization and Low-Rank Adaptation to run inference on proteins functions.

machine-learning natural-language-processing bioinformatics deep-learning biology proteins gpu transformers pytorch fine-tuning biobert function-prediction protbert

• Updated Nov 9, 2023
• Jupyter Notebook

对sklearn中的曲线拟合函数进行了整合，并加入一些常用的自定义函数，提供了曲线拟合并且预测曲线值或走势的简单的统一接口，能够在拟合并预测可导函数的一个通用函数

machine-learning sklearn prediction functional-regression function-prediction universal-functions curvefitting

• Updated Jun 28, 2021
• Python

A2GB is a pipeline that will transform the genome annotation files exported from Apollo in preparation for sequence submission to NCBI’s GenBank.

genome-annotation evidence-based function-prediction

• Updated Jun 4, 2024
• Perl

A proof-of-concept, automated and reproducible pipeline for predicting functional associations between pVOGs.

machine-learning bioinformatics-pipeline function-prediction bacteriophages

• Updated Nov 3, 2021
• Python

Pipeline for discovering novel protease inhibtiors at plant pathogen interface.

open-source transformers python3 protein-sequences function-prediction protein-classification colab-notebooks protein-language-model large-language-models protein-language-model-finetuning

• Updated Oct 30, 2026
• Jupyter Notebook

This repo contains a structural analysis on the human granzyme B, that was written in Rmarkdown

r protein-structure protein alignment structural-analysis function-prediction

• Updated Oct 27, 2021
• HTML

DeepMiR2GO: Inferring Gene Ontology Function of Human MicroRNAs based on a deep multi-label classification model

gene-ontology multilabel-classification function-prediction

• Updated Aug 1, 2024
• Python

Estimation of a non-linear function using neural networks

neural-network prediction estimation neural-networks function-approximation function-prediction

• Updated Sep 13, 2022
• Python