mikessh / vdjtoolsLinks
[Deprecated, see https://github.com/antigenomics/mirpy and other tools @antigenomics] Post-analysis of immune repertoire sequencing data
☆140Updated last year
Alternatives and similar repositories for vdjtools
Users that are interested in vdjtools are comparing it to the libraries listed below
Sorting:
- TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data☆130Updated last year
- Fast and accurate in silico inference of HLA genotypes from RNA-seq☆142Updated last year
- Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.☆112Updated last year
- Grouping of Lymphocyte Interactions by Paratope Hotspots☆97Updated 4 years ago
- ☆119Updated 2 years ago
- 🗂️ [vdjdb.cdr3.net is up and running] Git-based TCR database storage & management. Submissions welcome!☆144Updated last week
- AltAnalyze is a multi-functional and easy-to-use software package for automated single-cell and bulk gene and splicing analyses. Easy-to-…☆105Updated 3 years ago
- ☆160Updated last week
- A short tutorial on how to use RSEM☆138Updated 5 years ago
- Precision HLA typing from next-generation sequencing data☆203Updated last year
- Single Cell Analysis Pipelines☆107Updated last week
- AQUAS TF and histone ChIP-seq pipeline☆110Updated 3 years ago
- kallisto | bustools workflow for pre-processing single-cell RNA-seq data☆118Updated 3 years ago
- 📚 Tools and databases for analyzing HLA and VDJ genes.☆228Updated 5 months ago
- Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)☆237Updated 3 months ago
- ENCODE Uniform processing pipeline for ChIP-seq☆123Updated 5 years ago
- In-silico method written in Python and R to determine HLA genotypes of a sample. seq2HLA takes standard RNA-Seq sequence reads in fastq f…☆49Updated last month
- dandelion - A single cell BCR/TCR V(D)J-seq analysis package for 10X Chromium 5' data☆119Updated 2 weeks ago
- Suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments. See full GimmeMotifs documentation for detailed in…☆120Updated last year
- AmpliconArchitect (AA) is a tool to identify one or more connected genomic regions which have simultaneous copy number amplification and …☆153Updated last year
- Capturing protein-RNA interaction footprints from single-nucleotide CLIP-seq data☆32Updated 4 years ago
- Software tools for the analysis of epitope-specific T cell receptor (TCR) repertoires (scroll down for the README)☆86Updated 4 years ago
- ATAC-seq and DNase-seq processing pipeline☆166Updated 3 years ago
- Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.☆112Updated 10 months ago
- Analysis Workflow for Assay for Transposase-Accessible Chromatin using sequencing (ATAC-Seq)☆74Updated 2 years ago
- A repository for the design and analysis of pooled single cell RNA-seq perturbation experiments.☆95Updated 6 years ago
- ☆49Updated 3 years ago
- Single-Cell Genotyping Tool☆211Updated 2 years ago
- SCSA: cell type annotation for single-cell RNA-seq data☆91Updated 2 years ago
- Analysis pipeline for the GUIDE-seq assay.☆80Updated 2 years ago