ylaboratory / gene-embedding-benchmarksLinks
Benchmarking gene embeddings on single, paired, and gene set tasks
☆12Updated last week
Alternatives and similar repositories for gene-embedding-benchmarks
Users that are interested in gene-embedding-benchmarks are comparing it to the libraries listed below
Sorting:
- Companion to "A genome-wide almanac of co-essential modules assigns function to uncharacterized genes" (https://doi.org/10.1101/827071)☆27Updated 2 years ago
- ☆35Updated 2 months ago
- Functional Embedding of Gene Signatures☆45Updated last year
- Comprehensive Python client for the Uniprot REST API☆50Updated last month
- ☆20Updated 3 months ago
- ☆13Updated last week
- Generic TCR-epitope recognition prediction using CNN approach on both known and novel epitopes☆16Updated 2 years ago
- A network based gene classification library to generate genome wide predictions about genes that are functionally similar to the input ge…☆20Updated last month
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆37Updated 2 weeks ago
- A command-line tool to mitigate homology-based data leakage in sequence-to-expression models☆14Updated last week
- a framework for predicting global protein-protein interaction networks from dynamic mass spec data☆24Updated last year
- Jax code for functional genomics ML☆14Updated 4 months ago
- Python package for analyzing and visualizing iModulons☆13Updated 3 weeks ago
- Examples for gget (https://github.com/pachterlab/gget).☆37Updated 2 months ago
- TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TC…☆25Updated 2 years ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆33Updated 3 months ago
- A Python package for benchmarking pathway database with functional enrichment and classification methods☆13Updated 4 years ago
- Toolkit for training hyenaDNA-based autoregressive language models on DNA sequences.☆42Updated 9 months ago
- Genomic sequence preprocessing toolkit☆12Updated 2 weeks ago
- SignalingProfiler is a pipeline that builds signaling networks to cellular phenotypes from multiomics data.☆15Updated 3 weeks ago
- ☆38Updated last year
- HLA-II ligand predictor.☆44Updated 2 years ago
- Pipeline for assessing the tractability of potential targets (starting from Gene IDs)☆24Updated 5 months ago
- ☆53Updated last week
- GO2Sum is a deep learning based summarizer that generates human-readable summaries for GO term annotations made by protein function predi…☆16Updated last year
- Kyoto Encylopedia of Genes and Genomes (KEGG) NetworkX Topological parser automates downloading, parsing, and converting from a KEGG Mark…☆10Updated last year
- A Bio2BEL package for integrating pathway-related information from KEGG in BEL☆13Updated 3 years ago
- Knowledge-primed neural networks☆38Updated 2 years ago
- Code and data used in The Great Repertoire Project☆30Updated 4 years ago
- ☆27Updated 3 months ago