Protein sequence classification with self-supervised pretraining
-
Updated
Nov 29, 2021 - Python
#
protein-classification
Here are 19 public repositories matching this topic...
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
Deep Critical Learning. Implementation of ProSelfLC, IMAE, DM, etc.
deep-learning pytorch image-classification convolutional-neural-networks protein-design protein-function-prediction protein-localization protein-classification bert-transformer protein-transformer
-
Updated
Dec 23, 2022 - Python
A multi-stage graph neural network classification pipeline for protein meshes.
community-detection 3d-geometry curriculum-learning graph-attention-networks graph-neural-networks protein-classification
-
Updated
Oct 20, 2025 - Python
Antimicrobial Peptide Scanner Version 2. Open source GLPv3 release of code from 2018 paper "Deep learning improves antimicrobial peptide recognition" published in the journal Bioinformatics: https://doi.org/10.1093/bioinformatics/bty179
-
Updated
Jan 20, 2025 - Python
Graph Transformer for Protein Structure classification
-
Updated
Feb 8, 2025 - 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
May 13, 2026 - Jupyter Notebook
deep-neural-networks deep-learning image-processing regression mnist mnist-classification resnet regression-models cifar10 computervision facial-expression-recognition regression-algorithms cifar-10 mnist-handwriting-recognition binary-classifier cat-vs-dog digit-recognition-mnist protein-classification wine-quality-prediction
-
Updated
Jul 28, 2020 - Jupyter Notebook
LLM-powered classification of phage protein functions to identify strong lytic candidates against Klebsiella, using transfer learning and biological embeddings.
hackathon transfer-learning phage antimicrobial-resistance protein-classification klebsiella protein-embeddings bacteriophage esm-model phagos
-
Updated
May 22, 2025 - Jupyter Notebook
Classify proteins into functional families/domains using pretrained ESM embeddings with interpretable ML (SHAP/LIME), UMAP visualizations, and optional 3D rendering.
machine-learning bioinformatics pytorch esm embedding umap lime protein-family mlflow shap protein-classification
-
Updated
Dec 7, 2025 - Jupyter Notebook
Gene Anotation with CNNs
-
Updated
Apr 9, 2024 - Jupyter Notebook
GNNs for protein graph classification on OGBG-PPA with GCN, GIN and baseline models.
pytorch graph-classification graph-convolutional-network graph-neural-networks pytorch-geometric gnn graph-isomorphism-network protein-classification ogb
-
Updated
Aug 22, 2025 - Python
TooT-PLM-ionCT: A bioinformatics framework utilizing protein language models for accurate classification of ion channels and ion transporters from membrane proteins.
machine-learning natural-language-processing bioinformatics deep-learning membrane-proteins protein-classification protein-language-models ion-channel-classification ion-transporters
-
Updated
Nov 1, 2024 - Python
A comparative analysis of deep learning algorithms for multi label image classification using microscopic images.
deep-learning image-classification transfer-learning vgg19 fastai rnn-pytorch cnn-pytorch efficientnet protein-classification
-
Updated
May 9, 2024 - Jupyter Notebook
Protein subcellular localization classifier using ESM-2 embeddings and PyTorch MLP.
-
Updated
Mar 13, 2026 - Jupyter Notebook
Personal project dealing on Transformer and Protein family classification
-
Updated
Oct 29, 2024 - Python
A Python-based bioinformatics project that analyzes protein sequences using Biopython. The project performs FASTA parsing, protein property analysis, hydropathy profiling, motif detection, secondary structure estimation, protein classification, and graphical visualization using Matplotlib.
python bioinformatics biopython matplotlib protein-sequences sequence-analysis protein-analysis protein-classification motif-detection
-
Updated
May 22, 2026 - Jupyter Notebook
Assignments Completed during BIO543:Big Data Mining in Healthcare Course in IIITD during Winter 2025 Semester. Professor: Gajendra P.S. Raghava
machine-learning tensorflow sklearn feature-extraction kaggle-competition protein-sequences hyperparameter-tuning iiitd protein-classification cancer-classification bdmh bio543 bdmh-assignments big-data-mining-in-healthcare peptide-classification gene-expression-data
-
Updated
Apr 29, 2025 - Jupyter Notebook
A protein ML pipeline for eukaryotic signal peptide prediction using UniProtKB, MMseqs2, classical baselines, SVM biochemical features, and a CNN-BiLSTM classifier on ESM-2 protein embeddings.
-
Updated
Apr 28, 2026 - Jupyter Notebook
Improve this page
Add a description, image, and links to the protein-classification topic page so that developers can more easily learn about it.
Add this topic to your repo
To associate your repository with the protein-classification topic, visit your repo's landing page and select "manage topics."