The BDSG hosts a number of commercial bioinformatic software packages. Please contact us if you are interested in using any of these packages, and we will provide you with a quotation (where applicable) for accessing the software.

Floating licences


GeneSpring and Partek Genomic Suite have floating licenses, which means that the software can be used on any college computer, but only by one person at time. 
Access to floating licenses is managed through a booking system. We operate a fair usage policy allowing users to book out up to 3 hours per day. The booking system can be access through the above 'Book floating license' button, while instructions on using the booking system are available on the License booking system page.

 

commercial software

GeneSpring

 

GeneSpring logo

GeneSpring provides accessible statistical tools for intuitive microarray data analysis and visualization.

Features include:
Statistical Analysis
Clustering and PCA
Multi-omic Analysis for Integrated Biology

License: 1 floating license*
Access cost per annum: Please get in touch
Supported operating systems: Windows XP, Vista, 7, 8, 8.1; Linux ; OSX 10.9, 10.10

Installation

To install GeneSpring, Download the software (registration required), selecting the relevant client for your operating system and run the installer. Full installation instructions are available in the GeneSpring Installation Guide. The details on entering license information will be provided to subscribed users.

Partek

Partek logo

Partek Genomics Suite software is a desktop analysis software package which has a number of built-in workflows for a variety of genomic applications that guide researchers through every step of the analysis process. Advanced users can perform bespoke analysis.

Workflows include:

        Microarray

  • Gene expression
  • miRNA expression
  • Exon expression
  • Copy number
  • Allele specific copy number
  • Loss of Heterozygosity (LOH)
  • Association
  • Trio
  • ChIP-chip

Next Generation Sequencing

 

  • RNA-Seq
  • miRNA-Seq
  • ChIP-Seq
  • DNA-Seq
  • Methylation

Licence: 1 floating licence*
Access cost per annum: £495
Supported operating systems: Windows, OSX (10.7-10.9), Linux

Installation

Firstly, Download the software installer for your operating system. Windows and OSX users can start the installation by double-clicking the downloaded package, while instructions are available from Partek for Linux installations. When prompted to provide license server information, enter "bss-licsrv01.bioinformatics.ic.ac.uk" into the 'Server name' field, and '27010' into the 'Port' fieldAccess to the license is restricted, so you will need to provide the username you use to login to your computer to us to enable access to the license to be granted. 

Online tutorials and support are available through the Partek website.

Ingenuity Pathway Analysis (IPA)

Ingenuity pathways

IPA helps researchers analyse data derived from gene transcriptomics platforms, SNP arrays, and proteomics experiments, in order to gain insight into molecular and chemical interactions, cellular phenotypes, and disease processes within a system. IPA allows users to  quickly visualise trends and similarities across analyses using heat maps for Canonical Pathway, Downstream Effects, Upstream regulators and Causal Network Analyses.

License: hosted for UK Med-Bio project

Access cost per annum: Free for UK Med-Bio users, all others please mail us stating your group, department, PI and a very brief description of the project you will be using IPA for.