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Nuclear_Morphology / methods / Exporting raw data

Exporting data

To export raw data for single or multiple datasets, select the datasets you want to export, right click, and choose Export...

There are several options available depending on what data you need. If a single dataset is selected, the stats will be exported a file of your choice. By default, the file will be in the dataset's folder: e.g. if the dataset is saved to C:\folder\2017-04-11_12-00-00\Dataset.nmd then the default stats file will be C:\folder\2017-04-11_12-00-00\Dataset.txt

If multiple datasets are selected, the combined stats will be exported to a file of your choice. By default, the file will be called Multiple_stats_export.txt.

Columns are usually separated by tabs

Option | Action

Nuclear statistics | The measured values for each nucleus, plus normalised profiles Full nuclear profiles | The non-normalised angle profile values for each nucleus. Since there are a different number of values in each nucleus, they are combined into a single column, separated by commas for later parsing Full nuclear outlines | The X and Y coordinates of each border point in the outline of each nucleus. Since there are a different number of values in each nucleus, they are combined into a single column. XY pairs are separated by commas for later parsing. Within each pair, X and Y values are separated by a pipe (|). E.g. 12.4|3.6,12.9,4.0 Nuclear signal statistics | The measured values for each nuclear signal Nuclear signal shells | The measured nuclear signal in each shell, following shell analysis Cell locations within images | The XY coordinates of nucleus centres-of-mass within their source image Dataset analysis options | The options used to analyse this dataset in XML format. This can be used directly to set up subsequent analyses Single cell images | Export each nucleus as a separate image to a folder in the same directory as the nmd file. You will be given the option to mask out background; if this is selected, any pixels not within the nucleus will be set to black.

Populations_export_submenu.png

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