🧬 Immunarch: an R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
-
Updated
Apr 9, 2024 - R
🧬 Immunarch: an R Package for Fast and Painless Exploration of Single-cell and Bulk T-cell/Antibody Immune Repertoires
Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
[DEPRECATED, see https://immunarch.com/] tcR: an R package for immune receptor repertoire advanced data analysis.
An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.
simplified cellranger for long-read data
catELMo: Context-Aware Amino Acid Embedding Advances Analysis of TCR-Epitope Interactions
Simple Contrastive Embedding of the Primary sequence of T cell Receptors
A database of T-cell receptor sequences
Comparison of gene usage in immune repertoires under different biological conditions
Scripts related to bulkRNA-seq as well as single-cell CITE-seq and VDJ-seq data of Gearty et al. (2021)
R package. Main goals are to fit models to the clone size distribution of the TCR repertoire, and to perform model-based comparative analysis of samples.
Slides for presentations by ImmunoMind team
Analysis functions for deep sequenced immune repertoire (Repseq) datasets in R
An example of immunopipe
Dynamics of peripheral T-cell repertoire in pediatric cancer patients over the course of chemoradiation
MiXCR Clonotyping Block
📑 A library of example code -aka cheatsheets- for tools I use or analyses I carry out pretty often. This repo doubles as an easy way to find the code I need without going through all my scripts.
analysis of antibody diversity, .wdl wrapper workflow
Scripts used in the manuscript titled "Autoimmunity to hypocretin and molecular mimicry to flu in Type 1 narcolepsy"
Code for Jonsson*, Zhang*, et al, TteK (Granzyme K+ CD8 T cells), Science Translational Medicine, 2022: the core population of inflamed human tissue-associated CD8 T cells.
Add a description, image, and links to the tcr-repertoire topic page so that developers can more easily learn about it.
To associate your repository with the tcr-repertoire topic, visit your repo's landing page and select "manage topics."