SCeQTL

"SCeQTL" is an R package to facilitate expression Quantitative Trait Locus (eQTL) analysis on single-cell data. This tool capitalizes on the advancements in single-cell genomics technologies, which enable parallel transcriptome and genome sequencing within individual cells. SCeQTL addresses the unique challenges posed by single-cell sequencing data, offering a novel approach to uncovering the associations between genotypes and gene expression phenotypes at the single-cell level.

Key Features and Functionalities:

- Zero-Inflated Negative Binomial Regression: SCeQTL employs zero-inflated negative binomial regression to effectively analyze eQTLs in single-cell data. This statistical approach handles the distinct data distribution and sparsity inherent in single-cell datasets.

- Detection of Gene-Expression Differences: The package is designed to distinguish two gene-expression differences among different genotype groups, enhancing its utility in identifying specific patterns of genotype-phenotype associations.

- Versatile Application: Beyond eQTL analysis, SCeQTL can also find gene expression variations associated with other grouping factors, such as cell lineages or cell types. This versatility makes SCeQTL a valuable tool for a broad range of research questions in single-cell biology.