Article

<i>CROCKETA:</i> An automated framework for comprehensive multi-omic analysis of gene expression and clonotype immune repertoire at a single-cell level

2025-05-21

Abstract excerpt

<h4>ABSTRACT</h4> CROCKETA (single- C ell R epertoire O rganization & C ombined K inetics E xploration for T ranscriptomic A nalysis) is an automated and adaptable Snakemake pipeline designed to perform fundamental initial stages of single-cell analysis for both transcriptomic and immune repertoire data, with additional steps for detailed assay characterization. CROCKETA stems from the imperative need t...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 73b028f1-4647-5c93-a74c-0cb50b0e9c10
DOI: 10.1101/2025.05.16.654451

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

<i>CROCKETA:</i> An automated framework for comprehensive multi-omic analysis of gene expression and clonotype immune repertoire at a single-cell levelDOI 10.1101/2025.05.16.654451Read

gExcite - A start-to-end framework for single-cell gene expression, hashing, and antibody analysisSemantic proximity Read

Exploring and analysing immune single cell multi-omics data with VDJViewSemantic proximity Read

Scirpy: A Scanpy extension for analyzing single-cell T-cell receptor sequencing dataSemantic proximity Read

Exploring and analysing single cell multi-omics data with VDJViewSemantic proximity Read

scRepertoire 2: Enhanced and Efficient Toolkit for Single-Cell Immune ProfilingSemantic proximity Read

Exploring and analysing single cell multi-omics data with VDJViewSemantic proximity Read

Platypus: an open-access software for integrating lymphocyte single-cell immune repertoires with transcriptomesSemantic proximity Read

Comprehensive multi-omics single-cell data integration reveals greater heterogeneity in the human immune systemSemantic proximity Read

DALI (Diversity AnaLysis Interface): a novel tool for the integrated analysis of multimodal single cell RNAseq data and immune receptor profilingSemantic proximity Read

T cell receptor-centric perspective to multimodal single-cell data analysisSemantic proximity Read

Moana: A robust and scalable cell type classification framework for single-cell RNA-Seq dataSemantic proximity Read

Highly Multiplexed Single-Cell Full-Length cDNA Sequencing of human immune cells with 10X Genomics and R2C2Semantic proximity Read