andim / pyrepseqLinks
Python library for immune repertoire analysis
☆17Updated 2 weeks ago
Alternatives and similar repositories for pyrepseq
Users that are interested in pyrepseq are comparing it to the libraries listed below
Sorting:
- Compute generation probabilities of CDR3 amino acid and nucleotide sequences☆63Updated 2 months ago
- Stitchr - a Python script to stitch together coding TCR nucleotide sequences from V, J, and CDR3 info☆64Updated 5 months ago
- ☆17Updated 2 months ago
- Infer selection pressures on features of amino acid CDR3 sequences.☆25Updated last year
- Code and data used in The Great Repertoire Project☆29Updated 4 years ago
- flexible CDR based distance metrics☆69Updated last month
- ☆41Updated 5 years ago
- Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …☆59Updated 8 months ago
- Highly informative TCR representation model☆15Updated 2 months ago
- B- and T-cell receptor sequence annotation, simulation, clonal family and germline inference, and affinity prediction☆62Updated this week
- Decombinator v5: fast, error-correcting analysis of TCR repertoires☆27Updated 5 months ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆87Updated 4 months ago
- pygor3 repository☆10Updated 2 months ago
- ExplaiNN: interpretable and transparent neural networks for genomics☆49Updated 10 months ago
- TCRconv is a deep learning model for predicting recognition between T cell receptors and epitopes. It uses protBERT embeddings for the TC…☆26Updated 3 years ago
- Dataloader for applying sequence models to personalized genomics☆28Updated this week
- Defense Against the Dark Arts☆80Updated 2 years ago
- This repository hosts a minimal version of a Python API for BPNet.☆55Updated 2 weeks ago
- ☆31Updated 7 months ago
- Decima is a Python library to train sequence models on single-cell RNA-seq data.☆62Updated this week
- immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.☆74Updated last week
- Generic TCR-epitope recognition prediction using CNN approach on both known and novel epitopes☆17Updated 2 years ago
- TCRGP, a novel Gaussian process method that can predict if TCRs recognize certain epitopes. This method can utilize different CDR sequenc…☆30Updated 3 years ago
- bioinformatics plotting and tools☆60Updated last year
- Predictor of TCR-epitope interactions☆34Updated 5 months ago
- ☆34Updated last year
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆94Updated 2 months ago
- Unified knowledge-driven network inference from omics data☆91Updated this week
- Porting DESeq2 into python via rpy2☆67Updated 2 years ago
- IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:☆52Updated last month