Alternatives and similar repositories for SONIA:

Users that are interested in SONIA are comparing it to the libraries listed below

• matsengrp / sumrep
  Summary statistics for repertoires
  ☆16Updated last year
• statbiophys / OLGA
  Compute generation probabilities of CDR3 amino acid and nucleotide sequences
  ☆49Updated 3 years ago
• brineylab / grp-paper
  Code and data used in The Great Repertoire Project
  ☆29Updated 3 years ago
• qmarcou / IGoR
  IGoR is a C++ software designed to infer V(D)J recombination related processes from sequencing data. Find full documentation at:
  ☆51Updated 2 years ago
• GreiffLab / immuneSIM
  ☆38Updated last year
• SchubertLab / epytope
  ☆20Updated 3 months ago
• BIMSBbioinfo / flexynesis
  A deep-learning based multi-modal data integration suite that aims to achieve synesis in a flexible manner
  ☆26Updated this week
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆55Updated 4 years ago
• kmayerb / tcrdist2
  Quantifiable predictive features define epitope-specific T cell receptor repertoires
  ☆13Updated 2 years ago
• 10XGenomics / enclone
  VDJ Clonotyping & Analysis Tools
  ☆48Updated last month
• jbkinney / mavenn
  MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect
  ☆25Updated 7 months ago
• kundajelab / coessentiality
  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
• theislab / pseudodynamics
  Dynamic models for single-cell RNA-seq time series.
  ☆39Updated 6 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• COMBINE-lab / pyroe
  ☆16Updated last week
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆31Updated 4 years ago
• cellatlas / human
  ☆42Updated 2 months ago
• uio-bmi / compairr
  Comparison of Adaptive Immune Receptor Repertoires
  ☆26Updated last year
• psathyrella / partis
  B- and T-cell receptor sequence annotation, simulation, clonal family and germline inference, and affinity prediction
  ☆57Updated last week
• theislab / batchglm
  Fit generalized linear models in python.
  ☆27Updated last year
• antigenomics / vdjmatch
  ⚙️ Matching T-cell repertoire against a database of TCR antigen specificities
  ☆38Updated 6 years ago
• rargelaguet / thesis
  University of Cambridge PhD thesis
  ☆15Updated 4 years ago
• Teichlab / bracer
  BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data
  ☆42Updated 4 months ago
• mnielLab / netTCR
  predicting peptide and TCR interaction
  ☆20Updated 3 years ago
• mandricigor / imrep
  ImReP is a computational method for rapid and accurate profiling of the adaptive immune repertoire from regular RNA-Seq data.
  ☆28Updated 5 years ago
• theislab / tcellmatch
  ☆37Updated 4 years ago
• pritykinlab / guidescan-cli
  a guideRNA database generation tool
  ☆14Updated 2 weeks ago
• stracquadaniolab / pygna
  A Python package for gene network analysis
  ☆32Updated 2 years ago
• czbiohub-sf / cerebra
  A tool for fast and accurate summarizing of variant calling format (VCF) files
  ☆60Updated 2 years ago
• shwhalen / ml-pitfalls
  Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"
  ☆43Updated last year