Long-term B cell memory emerges at uniform relative rates in the human immune response

Code repository accompanying the paper "Long-term B cell memory emerges at uniform relative rates in the human immune response" by Cvijović, Swift, and Quake.

Overview

This repository contains the analysis code and workflows used in our study of B cell memory formation dynamics across human immune tissues.

Data Availability

Raw sequencing data is available at NCBI under accession number PRJNA1203354.

Repository Structure

• snakemake_workflow/: Contains the Snakemake pipeline for data pre-processing and analysis
• CITATION.cff: Citation information for this repository
• README.md: This file
• analysis: Contains the secondary analyses done on pre-processed data that could be used to reproduce the figures in the paper

Publication

Preprint available on bioRxiv: https://www.biorxiv.org/content/10.1101/2023.11.27.568934v2

Disclaimer

This software is provided as-is for research reproducibility purposes. While we aim to be helpful, we make no guarantees about providing ongoing support or maintenance for the code in this repository.

License

MIT License

Copyright (c) 2024 Ivana Cvijović, Michael Swift, Stephen R. Quake

Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.

THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.