scCalibratoR is a Bioconductor package designed to streamline the process of aligning single-cell RNA sequencing (scRNA-seq) datasets from different batches or sources. It also provides tools for identifying and correcting potential misannotations in cell populations by highlighting the genes responsible for discrepancies.
- Batch Effect Correction: Align single-cell datasets to a trusted reference dataset, mitigating technical noise while preserving biological signals.
- Annotation Refinement: Detect and correct potentially misannotated cells by comparing gene expression profiles to reference profiles.
- Gene Driver Identification: Identify specific genes driving annotation discrepancies, facilitating targeted corrections.
- Visualization and Reporting: Generate visualizations and reports to summarize alignment and correction processes, aiding in interpretation and validation.
To install the development version of the package from GitHub use the following command:
BiocManager::install("ccb-hms/scCalibratoR")NOTE: you will need the BiocManager package to install from Bioconductor.
To build the package vignettes upon installation use:
BiocManager::install("ccb-hms/scCalibratoR",
build_vignettes = TRUE,
dependencies = TRUE)