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Background  Mathematical modelling of biological processes often requires a large variety of different data sets for parameter estimation and validation. It is common practice that clinical data are not available in raw formats but are provided as graphical representations. Hence, in order to include these data into environments used for model simulations and statistical analyses, it is necessary to extract them from their presentations in the literature. For this purpose, we developed the freely available open source tool  ycasd . After establishing a coordinate system by simple axes definitions, it supports convenient retrieval of data points from arbitrary figures.    Results  After describing the general functionality and providing an overview of the programme interface, we demonstrate on an example how to use  ycasd . A major advantage of  ycasd  is that it does not require a certain input file format to open and process figures. All options of  ycasd  are accessible through a single window which eases handling and speeds up data extraction. For subsequent processing of extracted data points, results can be formatted as a  Matlab  or an  R  matrix. We extensively compare the functionality and other features of  ycasd  with other publically available tools. Finally, we provide a short summary of our experiences with  ycasd  in the context of modelling.    Conclusions  We conclude that our tool is suitable for convenient and accurate data retrievals from graphical representations such as papers. Comparison of tools reveals that  ycasd  is a good compromise between easy and quick capturing of scientific data from publications and complexity. Our tool is routinely applied in the context of biological modelling, where numerous time series data are required to develop models. The software can also be useful for other kinds of analyses for which published data are required but are not available in raw formats such as systematic reviews and meta-analyses.

Ycasd– a tool for capturing and scaling data from graphical representations