Alternatives and similar repositories for vdjdb-db

Users that are interested in vdjdb-db are comparing it to the libraries listed below

• immunoengineer / gliph
  Grouping of Lymphocyte Interactions by Paratope Hotspots
  ☆96Updated 5 years ago
• mikessh / vdjtools
  [Deprecated, see https://github.com/antigenomics/mirpy and other tools @antigenomics] Post-analysis of immune repertoire sequencing data
  ☆142Updated last year
• phbradley / tcr-dist
  Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
  ☆86Updated 4 years ago
• slowkow / awesome-vdj
  📚 Tools and databases for analyzing HLA and VDJ genes.
  ☆236Updated 3 weeks ago
• statbiophys / OLGA
  Compute generation probabilities of CDR3 amino acid and nucleotide sequences
  ☆63Updated 2 months ago
• broadinstitute / depmap_omics
  What you need to process the Quarterly DepMap-Omics releases from Terra
  ☆125Updated last week
• Teichlab / tracer
  TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
  ☆133Updated 2 years ago
• openvax / mhctools
  Python interface to running command-line and web-based MHC binding predictors
  ☆99Updated last year
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆337Updated 2 weeks ago
• milaboratory / mixcr
  MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
  ☆381Updated last week
• sidhomj / DeepTCR
  Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
  ☆123Updated 4 months ago
• kmayerb / tcrdist3
  flexible CDR based distance metrics
  ☆69Updated last month
• churchmanlab / genewalk
  GeneWalk identifies relevant gene functions for a biological context using network representation learning
  ☆133Updated last year
• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆271Updated last year
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆132Updated last year
• ANHIG / IMGTHLA
  Github for files currently published in the IPD-IMGT/HLA FTP Directory hosted at the European Bioinformatics Institute
  ☆248Updated 2 weeks ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆154Updated last year
• uio-bmi / immuneML
  immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.
  ☆73Updated this week
• pwilmart / TMT_analysis_examples
  Examples of TMT data analyses using R. Links to notebooks and repositories. Also a few spectral counting analyses.
  ☆22Updated 3 years ago
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆119Updated 3 years ago
• sebriois / biomart
  Python biomart API
  ☆69Updated 2 years ago
• xinyu-dev / igblast
  Detailed explanation on how to setup database for NCBI IgBlast executable, and using it in Python
  ☆32Updated 3 years ago
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆245Updated last week
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆153Updated last year
• mnielLab / NetTCR-2.0
  NetTCR-2.0. Sequence-based prediction of peptide-TCR binding
  ☆35Updated 3 years ago
• andrewrech / antigen.garnish
  ☆48Updated 3 years ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆246Updated this week
• maxwshen / indelphi-dataprocessinganalysis
  Data Processing, Modeling and Analysis scripts for CRISPR-inDelphi
  ☆14Updated 2 years ago
• MathOnco / NeoPredPipe
  Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
  ☆114Updated last year
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆82Updated last year