dh5view - Image Data Analysis and Viewing

DSView is a general purpose data viewer that supports all the PYME Data Formats and additionally the QUEUE objects used in real-time data analysis. DSView may either be invoked with the command:

dh5view [options] filename

or launched programatically by passing a numpy array or PYME datasource to PYME.DSView.View3D(...).


DSView has a number of modules for performing various analysis tasks, including Localisation Analysis, PSF Extraction, Deconvolution, and Tiling.


Modes represent personalities suitable for use with certain types of data and determine which modules are loaded on startup. The mode used is determined by filename, although modules which are not loaded by default can be inserted later from the Modules menu.

The modes are:

Name File types Description
lite programatic invocation no modules loaded
LM .h5, QUEUE localisation analysis
blob .tif blob analysis and PSF extraction
default aything else PSF extraction

A particular mode can be forced by calling dh5view with the -m option, eg:

dh5view -m LM filename