[Markus Stoeckli]

Please copy all the project directories to a folder (e.g. “Studdy Data”) and reference this folder in BioMap. In this Folder, you have then a folder of each project. And in each project folder, there is a sub-folder for each subject.

Markus

[Markus Stoeckli]

The study database could reside anywhere on your disks or network drives. It is a folder, containing sub-folders for each project you created. You may try to localize it by by searching for files with the name “subject.dat”.

Markus

[Markus Stoeckli]

You will only get the activation screen if there is no valid activation code on the computer.

Markus

[Markus Stoeckli]

Switzerland… I’ll be in office for another couple of minutes…

[Markus Stoeckli]

You may call me at the number shown under the Contacts on this website and we can try to solve it… Markus

[Markus Stoeckli]

I’m still confused about your computer ID. You received the activation code 49009751 which you put into the key field?

Markus

[Markus Stoeckli]

Please try to generate a new activation code on the website. Just to make sure it’s the right code… your previous ID had only 11 digits instead of 12…

Markus

[Markus Stoeckli]

Point the StudyDate path to your old location (found in Preferences). That will do it…

Markus

[Markus Stoeckli]

Please revert to the manual. The image you see upon loading a file is the first m/z value. Use the Plot tool to show the MS and select the peak of interest. And then adjust the intensity scale.

Markus

[Markus Stoeckli]

Did you do a clean install, or was there a previous BioMap version on the computer? Once you start BioMap, does it show the splash screen with the computer ID?

Markus

[Markus Stoeckli]

Added support for new data types in MSI files:

signed short (type 4, 2 Bytes)
signed int (type 8, 4 Bytes)
float (type 16, 4 Bytes)
double (type 64, 8 Bytes)

All data is stored in floats upon import in BioMap.

[Markus Stoeckli]

BioMap supports as of version 3.8.0.3 the following data types when importing msi or imzML files:

SIGNED_SHORT = 4
SIGNED_INT = 8
FLOAT = 16
DOUBLE = 64

Internally, BioMap handles all data as single precission float.

[Markus Stoeckli]

Finally, a new update of BioMap is available (see software section). These are the major improvements:

[ul]
[li]support of imzML continuous format[/li]
[li]improved license registration process[/li]
[li]BioMap main path error solved[/li]
[/ul]

Please report issues with these new features in this forum

Markus

[Markus Stoeckli]

[b]Ralf wrote:[/b]
[quote]So it looks like the data dimension is 80786 (and not 15250), which would make sense with the t2m file. I understand that dimensionfor the ANALYZE format is limited to 32768 and it therefore shows a different value in the header.[/quote]

Yes, your observation is correct. When importing in BioMap/TissueView, the routine checks for the file size and uses this to calculate the dimensions if it’s above 2^16. The import filter then allows to select a reduced mass range or to bin data points. This is annoying, but the MRI guys did not think that we’d ever need more values 😉 . This is one of the reasons why we came up with imzML.

[quote]Is there any plan to support imzML as an output format for the imaging tools?[/quote]

Yes, we are currently building a tool for the FlashQuant systems which will output imzML. This code might then be ported to the 4000 Series software, if there should be a demand…

Markus

[Markus Stoeckli]

Substraction will not be successful. Instead, a division by the signal of the internal standard will compensate for matrix effects.

markus

[Author]

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