Alternatives and similar repositories for awesome-vdj

Users that are interested in awesome-vdj are comparing it to the libraries listed below

• crazyhottommy / TCR-BCR-seq-analysis
  T/B cell receptor sequencing analysis notes
  ☆262Updated 8 months ago
• immunoengineer / gliph
  Grouping of Lymphocyte Interactions by Paratope Hotspots
  ☆95Updated 4 years ago
• broadinstitute / ABC-Enhancer-Gene-Prediction
  Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
  ☆234Updated last month
• scverse / scirpy
  A scanpy extension to analyse single-cell TCR and BCR data.
  ☆236Updated this week
• broadinstitute / ssGSEA2.0
  Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)
  ☆291Updated 3 weeks ago
• zktuong / dandelion
  dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data
  ☆117Updated this week
• liulab-dfci / TRUST4
  TCR and BCR assembly from RNA-seq data
  ☆320Updated last month
• pachterlab / kallistobustools
  kallisto | bustools workflow for pre-processing single-cell RNA-seq data
  ☆118Updated 3 years ago
• pinellolab / scATAC-benchmarking
  Benchmarking computational single cell ATAC-seq methods
  ☆184Updated 4 years ago
• kundajelab / chrombpnet
  Bias factorized, base-resolution deep learning models of chromatin accessibility (chromBPNet)
  ☆177Updated 3 weeks ago
• saezlab / dorothea
  R package to access DoRothEA's regulons
  ☆149Updated last year
• dviraran / xCell
  Cell types enrichment analysis
  ☆198Updated last year
• mdozmorov / HiC_data
  A (continuously updated) collection of references to Hi-C data. Predominantly human/mouse Hi-C data, with replicates.
  ☆191Updated last month
• cortes-ciriano-lab / SComatic
  A tool for detecting somatic variants in single cell data
  ☆211Updated 10 months ago
• antigenomics / vdjdb-db
  🗂️ [vdjdb.cdr3.net is up and running] Git-based TCR database storage & management. Submissions welcome!
  ☆138Updated this week
• sidhomj / DeepTCR
  Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
  ☆120Updated 2 months ago
• NBISweden / workshop-scRNAseq
  Single cell RNA sequencing analysis course
  ☆220Updated 3 months ago
• pachterlab / kb_python
  A wrapper for the kallisto | bustools workflow for single-cell RNA-seq pre-processing
  ☆164Updated 2 months ago
• scverse / muon
  muon is a multimodal omics Python framework
  ☆240Updated 5 months ago
• Teichlab / tracer
  TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
  ☆130Updated last year
• liulab-dfci / MAESTRO
  Single-cell Transcriptome and Regulome Analysis Pipeline
  ☆285Updated 2 years ago
• scverse / decoupler
  Python package to perform enrichment analysis from omics data.
  ☆215Updated this week
• crazyhottommy / scATACseq-analysis-notes
  my notes for scATACseq analysis
  ☆128Updated last year
• theislab / diffxpy
  Differential expression analysis for single-cell RNA-seq data.
  ☆200Updated 5 months ago
• BorchLab / scRepertoire
  A toolkit for single-cell immune profiling
  ☆344Updated last week
• mikessh / vdjtools
  [Deprecated, see https://github.com/antigenomics/mirpy and other tools @antigenomics] Post-analysis of immune repertoire sequencing data
  ☆140Updated last year
• phbradley / conga
  Clonotype Neighbor Graph Analysis
  ☆90Updated this week
• Winnie09 / GPTCelltype
  ☆207Updated last year
• zhangyuqing / ComBat-seq
  Batch effect adjustment based on negative binomial regression for RNA sequencing count data
  ☆184Updated 4 years ago
• scverse / SnapATAC2
  Single-cell epigenomics analysis tools
  ☆278Updated 3 weeks ago