# Seqtometry This is an R package for Seqtometry analysis of single cell data by scoring with signatures (gene sets). For additional details regarding the algorithmic details and applications of this method, please see the original Seqtometry publication: [Kousnetsov et al., Single-cell sequencing analysis within biologically relevant dimensions, Cell Systems (2024)](https://doi.org/10.1016/j.cels.2023.12.005) # Graphical abstract <img src="vignettes/Graphical_Abstract.png" width="50%"> # Installation Stable version ```r if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager") BiocManager::install("Seqtometry") ``` Developmental version ```r if (!require("remotes", quietly = TRUE)) install.packages("remotes") remotes::install_github("HawigerLab/Seqtometry") ``` > [!NOTE] > For the accompanying GUI prototype, please see the [SeqtometryGUI repository](https://github.com/HawigerLab/SeqtometryGUI). # Quickstart Please see the [vignette](vignettes/Seqtometry.Rmd) for basic usage. For more detailed protocols involving step-by-step instructions for more advanced workflows, please see the following publication: [Kousnetsov and Hawiger, Analysis of single cell sequencing data by Seqtometry, STAR Protocols (2024)](https://doi.org/10.1016/j.xpro.2024.103209)