statbiophys / SONIALinks
Infer selection pressures on features of amino acid CDR3 sequences.
☆24Updated last year
Alternatives and similar repositories for SONIA
Users that are interested in SONIA are comparing it to the libraries listed below
Sorting:
- Code and data used in The Great Repertoire Project☆29Updated 4 years ago
- IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:☆51Updated 3 years ago
- Summary statistics for repertoires☆17Updated 2 years ago
- B- and T-cell receptor sequence annotation, simulation, clonal family and germline inference, and affinity prediction☆59Updated last week
- VDJ Clonotyping & Analysis Tools☆49Updated 6 months ago
- immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.☆69Updated this week
- ☆38Updated last year
- ☆40Updated 5 years ago
- CDR3 clustering module providing a new method for fast and accurate clustering of large data sets of CDR3 amino acid sequences, and offer…☆54Updated last year
- Downloader for ENCODE☆32Updated 4 years ago
- Fast Gene Set Enrichment Analysis (GSEA) implementation of the prerank algorithm. Use Loess interpolation of bimodal ES distribution for …☆51Updated 4 months ago
- Stitchr - a Python script to stitch together coding TCR nucleotide sequences from V, J, and CDR3 info☆57Updated last month
- Comparison of Adaptive Immune Receptor Repertoires☆28Updated 7 months ago
- ☆21Updated 6 months ago
- A Python package for gene network analysis☆32Updated 3 years 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
- Compute generation probabilities of CDR3 amino acid and nucleotide sequences☆59Updated 4 years ago
- flexible CDR based distance metrics☆66Updated last year
- ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.☆29Updated 5 years ago
- ⚙️ Matching T-cell repertoire against a database of TCR antigen specificities☆39Updated 6 years ago
- MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect☆28Updated last month
- ☆18Updated 5 months ago
- A fast dataloader for bigwig files made for machine learning☆28Updated 4 months ago
- Companion to "A genome-wide almanac of co-essential modules assigns function to uncharacterized genes" (https://doi.org/10.1101/827071)☆27Updated 3 years ago
- Builds a PEP from SRA or GEO accessions☆53Updated 2 months ago
- bioinformatics plotting and tools☆59Updated last year
- Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"☆45Updated last year
- Flexible and efficient tests for evidence of positive selection anywhere in the cancer genome.☆26Updated 3 years ago
- Netbooks is a JupyterHub catalog of use cases in gene regulatory network inference using netZoo methods..☆44Updated last month
- BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data☆42Updated last year