Alternatives and similar repositories for vdjdb-db:

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

• mikessh / vdjtools
  [REPLACED by https://github.com/antigenomics/mirpy] Post-analysis of immune repertoire sequencing data
  ☆134Updated 9 months ago
• immunoengineer / gliph
  Grouping of Lymphocyte Interactions by Paratope Hotspots
  ☆91Updated 4 years ago
• phbradley / tcr-dist
  Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)
  ☆80Updated 3 years ago
• slowkow / awesome-vdj
  📚 Tools and databases for analyzing HLA and VDJ genes.
  ☆217Updated 3 months ago
• Teichlab / tracer
  TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
  ☆126Updated last year
• statbiophys / OLGA
  Compute generation probabilities of CDR3 amino acid and nucleotide sequences
  ☆50Updated 3 years ago
• broadinstitute / depmap_omics
  What you need to process the Quarterly DepMap-Omics releases from Terra
  ☆114Updated last week
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆298Updated 3 weeks ago
• openvax / mhctools
  Python interface to running command-line and web-based MHC binding predictors
  ☆94Updated 5 months ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆142Updated last year
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆117Updated 2 years ago
• MathOnco / NeoPredPipe
  Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
  ☆110Updated 6 months ago
• milaboratory / mixcr
  MiXCR is an ultimate software platform for analysis of Next-Generation Sequencing (NGS) data for immune profiling.
  ☆343Updated this week
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆180Updated 4 years ago
• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆242Updated 3 months ago
• sidhomj / DeepTCR
  Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
  ☆118Updated 2 years ago
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆112Updated this week
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆124Updated 6 months ago
• kmayerb / tcrdist3
  flexible CDR based distance metrics
  ☆58Updated 6 months ago
• sdparekh / zUMIs
  zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
  ☆278Updated 8 months ago
• deeptools / pyBigWig
  A python extension for quick access to bigWig and bigBed files
  ☆226Updated last month
• dviraran / xCell
  Cell types enrichment analysis
  ☆194Updated 9 months ago
• velocyto-team / velocyto.py
  RNA velocity estimation in Python
  ☆164Updated last year
• mhorlbeck / ScreenProcessing
  ☆64Updated last year
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆83Updated 6 months ago
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆269Updated 5 months ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆216Updated this week
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆226Updated this week
• mdozmorov / HiC_data
  A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
  ☆182Updated last month
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆136Updated 4 years ago