Video Tutorials

These videos are also available on the GenePattern YouTube channel.

Below is a list of video tutorials about using GenePattern: 

•  Getting Started
  Learn to use the GenePattern public server by running differential expression analysis. (5 minutes)
  Created with GenePattern version 3.2
   
•  Converting Expression Data into a GenePattern Input File Format
  Learn to convert your expression data into a GCT or RES file for input into GenePattern. (4 minutes)
  Created with GenePattern version 3.2
   
•  GenePattern Pipelines: Creating a Workflow from a Series of Analysis Steps
  Learn to create a GenePattern pipeline from an analysis result file. (3 minutes)
  Created with GenePattern version 3.2
   
•  Imputing Missing Values in GenePattern
  Learn to impute missing values in a dataset using the ImputeMissingValuesKNN module. (3 minutes)
  Created with GenePattern version 3.2.2
   
•  Using GenePattern Protocols
  Learn how to perform common analyses in GenePattern using protocols. (4 minutes)
  Created with GenePattern version 3.2.2
   
•  Converting Between MAGE-TAB and GenePattern Expression File Formats
  Learn how to convert to and from the MAGE-TAB expression data format in GenePattern. (7 minutes)
  Created with GenePattern version 3.2.3
   
•  Converting Ilumina Expression Data Into the GenePattern GCT format
  Learn how to covert Illumina expression data into the GenePattern GCT format. (4 minutes)
  Created with GenePattern version 3.2.3
   
•  Using IGV through GenePattern (v2)
  Learn how to launch IGV from GenePattern to visualize your result files. (7 minutes)
  Created with GenePattern version 3.3
   
•  Importing Data from caArray to GenePattern
  Learn how to import data from caArray into GenePattern, using the caArray2.3.0Importer module. (4 minutes)
  Created with GenePattern version 3.2.3
   
•  Submitting Your Module to GParc
  Learn how to submit your GenePattern module to GParc, the GenePattern archive. (3 minutes)
  Created with GenePattern version 3.3
   
•  RNA-seq Quality Control (QC) in GenePattern
  Learn how to examine the content aligned RNA-seq data using common QC metrics in GenePattern. (10 minutes)
  Created with GenePattern version 3.3.2
   
•  Batch Execution in GenePattern 3.3.3
  Learn how to submit batch jobs from a set of input files in GenePattern 3.3.3. (4 minutes)
   
•  Using the GenePattern Uploads Tab
  Learn how to upload and manage files in the Uploads tab in GenePattern. (4 minutes)
  Created with GenePattern version 3.3.3
   
•  Exporting Datasets from InsilicoDB to GenePattern
  Learn how to export a dataset from InsilicoDB and automatically import into GenePattern. (4 minutes)
  Created with GenePattern version 3.3.3
   
•  Exploring the New GenePattern Pipeline Designer
  This brief tutorial will demonstrate how to create and edit pipelines in GenePattern 3.4.0. (6 minutes)
•  An Overview of GenePattern 3.8.0
  This video covers some of the new features of GenePattern 3.8.0 (4 minutes)

Please note that most of these videos were created previous to the release of GenePattern 3.8.0 and therefore do not reflect the current UI. We are working to provide updates to all of our documentation, to align with the new look and feel of GenePattern 3.8.0. Please feel free to contact us if you have any questions or comments.