Bioimage Analysis

We provide a full range of image analysis support for research studies within the Institute of Genetics and Cancer. We can support your project from inception all the way to publication. Laura Murphy is our Bioimage analyst.

Image Analysis Workstations

The image analysis workstations can be found in CG.03.

Available software

The facility supports a wide variety of image analysis packages. Below are those most used at our facility. We also have the facility Github which hosts scripts which have been used and developed for our work.

Fiji/ImageJ

An open source flexible visualisation, processing and analysis tool developed by NIH. It is available as standard ImageJ or Fiji which includes plugins. For more information visit the Fiji website.

CellProfiler

A software specialising in segmentation and analysis of objects such as cells and nuclei within images and image stacks. Useful for processing larger datasets. For more information visit the CellProfiler website.

Imaris

Can be used for segmentation, visualisation and analysis of 3D and 4D imaging data. It can read most imaging files formats, including .ims, .nd2, .tif, and .lif. For more information visit the Imaris website.

NIS-Elements

Proprietary software from Nikon Instruments for image documentation, presentation, processing and analysis. Our Super-resolution and Deconvolution confocal systems run NIS elements. For more information visit the Nikon Instruments website.

Symphotime

Specialist proprietory software from Picoquant for FCS processing and analysis of FCS and FCCS data, with functionality for FLIM data analysis. For more information visit the Picoquant website.

QuPath

A powerful, flexible, extensible open software platform for whole slide digital pathology image analysis and more. We're fortunate enough to have the developer of QuPath, Pete Bankhead, working at the Institute. Find out more about his work here. For more information visit the QuPath website.

OMERO

We host an OMERO instance for our ESRIC facilities and we collaborate closely with the Open Microscopy team.