BTEP: Single Cell RNA-Seq Analysis with Partek Flow
When: Sep. 19th, 2018 8:45 am - 11:00 am
To Know
Where:
Building 37, Room 4041/4107, NIH
Presented By:
Xiaowen Wang (Partek)
This class has ended.
Video Archive
*Class recordings may take ~48 hours to become available.
About this Class
TOPIC: Single Cell RNA-Seq Data Analysis in Partek Flow
Partek (partek.com) Flow software provides a point-and-click interface for analysis of next -gen sequencing data. Users can customize analysis pathways for sequence alignment, differential expression, QA/QC, variant calling and annotation, clustering, peak calling, statistical analysis and quantification. These pathways can be re-used and shared, resulting in publication-ready data visualizations.
During this session, attendees will learn how to identify cell populations and detect differentially expressed genes in a simple Single Cell RNA-Seq experiment with the point-and-click interface in Partek Flow. Attendees will work with a set of test data for this tutorial.
Please bring a laptop running Google chrome.
- Import count matrix text file
- Filter cells using interactive QA/QC charts
- Filter low expressed genes
- Normalize 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
- Demonstrate how to import fastq files and upstream analysis pipeline on 10X prep kit
To attend this meeting via Webex, please click here:
https://cbiit.webex.com/cbiit/onstage/g.php?MTID=e8fc591c272dbb8074dc7e3f24b1f861f Files
