This class will provide a demonstration of different options for cell type classification and treatment group comparisons at different levels with multiple samples of Single Cell RNA-Seq data. A CITE-Seq data will also be used to illustrate how to integrate protein and RNA information. Attendees will also learn how to integrate histology information with gene expression profile using a Spatial transcriptome data set. Partek Flow is a web-based application for the analysis of next generation sequencing (NGS) including RNA, small RNA, and DNA sequencing. With an easy-to-use graphical interface and the ability to build custom analysis pipelines, Partek Flow enables users to carry out routine NGS data analysis using dozens of popular algorithms without writing codes or running command lines tools. Attendees will need to have taken the Partek Flow Basic Components class before registering or be comfortable with Partek Flow.
By the end of this class, attendees will be able describe how to access Partek Flow from the NIH Library, demonstrate how to combine cell type classification among different samples, perform cell type abundance analysis, identify batch removal options, conduct CITE-seq data and spatial transcriptomics data analysis, and create publication-ready visualization