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HSLS MolBio Workshops: Single Cell RNA-Seq

Information about hands-on bioinformatics classes


This LibGuides page will provide an introduction to single cell RNA-Seq analysis using the library-licensed Partek Flow software. Participants will learn how to (1) import the FASTQ files from single cell RNA-Seq experiment (2) perform quality check and trim tags (3) align the reads to a reference genome (4) perform deduplication of UMIs and Filter cell barcodes (5) perform quantification and generate single cell count matrix (6) perform single-cell QC and generate t-SNE plots (7) classifying cell types and (8) compare gene expressions between cell types.


Please include the following statement in the acknowledgments section for all publications, posters, and presentations -> Data analysis was performed using Partek Flow software licensed through the Molecular Biology Information Service of the Health Sciences Library System, University of Pittsburgh.

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