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NIH Library Bioinformatics Class: Partek Flow

 Image has hands manipulating a tablet with a flow diagramThe NIH Library Bioinformatics Support Program is presenting Partek Flow: Hands-On Single Cell RNA-Seq Data Analysis on November, 6, 1:00 p.m.– 4:00 p.m. in the NIH Library Training Room, Building 10. Partek Flow is browser-based software for next-generation sequencing data analysis. It is available for NIH staff through the Helix Systems high-performance computational cluster via a license provided by the NIH Library.

In this introductory class, participants will use the Partek Flow point-and-click interface to identify cell populations and detect differentially expressed genes in a simple Single Cell RNA-Seq experiment. During this session, students will:

  • Import a count matrix text file
  • Filter cells using interactive QA/QC charts
  • Filter low expressed genes
  • Normalize the raw count
  • Visualize cell populations using the interactive 3D t-SNE plot
  • Overlay gene expression and pathway signatures on the 3D t-SNE plot
  • Select and classify cells on the 3D t-SNE plot
  • Detect differentially expressed genes between sub populations
  • Filter a gene list
  • Identify enriched KEGG pathway and/or GO terms
  • Visualize cell-level results using heat maps, volcano plots, and violin plots

Even if the class is full, please sign up for the waitlist and plan on attending the class. When the class begins, empty seats will be filled on a first-come, first-served basis by waitlisted students who arrive early and sign in. An effort is made to accommodate everyone.

Sign language interpreters and other reasonable accommodations can be provided. If you require such accommodations, please contact the NIH Library Information Desk at 301-496-1080 five business days in advance. For TDD users/callers, please call the above number through the Federal Relay Service at 1-800-877-8339.

Go to the NIH Library Bioinformatics Support Program page to learn more about the program and for more information on how to access the NIH Library’s bioinformatics analysis tools and databases, including Partek Flow, which the NIH Library makes available to NIH staff.

The NIH Library in Building 10 serves the information needs of NIH staff and select Department of Health and Human Services (HHS) agencies. The NIH Library is part of the Office of Research Services (ORS) in the Office of the Director (OD). NIH Library classes, events, resources, and services, subscribe to our e-news.