. . . Skip to main content

Partek Genomics Suite (PGS): Overview

Main Applications

Partek Genomic Suite (PGS) is a software package for statistical analysis and visualization of both microarray and aligned Next-generation sequencing data.

Microarray Data Analysis
Complete workflow from raw data to significant gene list (accept all major platforms)

  • Gene and exon expression
  • Regulation data (ChIP-on-chip, methylation, promoter tiling arrays)
  • microRNA expression
  • SNP and copy number analysis
  • Genome-wide association analysis

Next-Generation Sequencing Data Analysis
Statistical workflow from aligned reads (BAM files) to significant gene list

  • RNA-seq
  • DNA-seq
  • ChIP-seq
  • microRNA-seq
  • methylation-seq


  • Heatmap
  • PCA plots
  • Hierarchical and partitioning clustering
  • Survival curves
  • Time-series profile trellis

Why use PGS?

PGS is one of the most widely-used and high-performance tools for genomic data analysis

  • Easy to follow user friendly workflows
  • Powerful statistics and interactive visualization
  • Direct import of raw/processed microarray data and aligned sequencing reads (BAM files)
  • Quick identification of significantly altered genes

Access PGS @ USC

USC has licensed PGS for the free use of USC faculty, students and staff. The license consists of TWO concurrent user seats.  There are two ways you can access PGS:

  1. On your own computer
    Install the software on your computers connected to USC network via Ethernet cable (USC fixed IP addresses, NO WiFi)
  2. On our workstation computers
    The pre-installed software is available at the following locations:
  • Norris Medical Library (RM203A), the Health Sciences Campus.
  • Wilson Dental Library,  the University Park Campus.

To request your free access of PGS:

  1. Carefully read the PGS user policy
  2. Fill out and submit the PGS registration form

Need help?

Get started

  • Task-oriented, step-by-step tutorials with demo datasets (PDF documents):
    these are great resources to get you started

Help @ Partek Inc.

Help @ USC Libraries Bioinformatics Service