Cytofkit: A Bioconductor Package for an Integrated Mass Cytometry Data Analysis Pipeline.

ABSTRACT: Single-cell mass cytometry significantly increases the dimensionality of cytometry analysis as compared to fluorescence flow cytometry, providing unprecedented resolution of cellular diversity in tissues. However, analysis and interpretation of these high-dimensional data poses a significant technical challenge. Here, we present cytofkit, a new Bioconductor package, which integrates both state-of-the-art bioinformatics methods and in-house novel algorithms to offer a comprehensive toolset for mass cytometry data analysis. Cytofkit provides functions for data pre-processing, data visualization through linear or non-linear dimensionality reduction, automatic identification of cell subsets, and inference of the relatedness between cell subsets. This pipeline also provides a graphical user int

SUBMITTER: Chen H 

PROVIDER: S-EPMC5035035 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature