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2024_Ruthe_SND
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2024_Ruthe_SND
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input
arefks 1cd13fc10c added amba regoins to the mix 1 maand geleden
..
AIDAqc_ouptut_for_data d35258f76d changed voitign with script to have additional columns 7 maanden geleden
C57BL6_mouse 45782701c4 updated input and output 10 maanden geleden
Viral_tracing_density_maps_from_Jupyter_Notebook 3a7f02f1c4 temp 8 maanden geleden
del 82d9022a7e cleand up for clarity 8 maanden geleden
AMBA.nii.gz 1cd13fc10c added amba regoins to the mix 1 maand geleden
Behavioural_data.csv c7f5ca5ffc added behav data 8 maanden geleden
C57BL6_mouse_iso.nii.gz 45782701c4 updated input and output 10 maanden geleden
C57BL6_mouse_qa.nii.gz 8cf7397b76 newly processed, fixed some bugs in code 6 maanden geleden
NP_template_sc0.nii.gz 45782701c4 updated input and output 10 maanden geleden
README.md 7752f461af added some file 9 maanden geleden
SSp_bfd5_Primary_somatosensory_area_barrel_field_layer_5.nii.gz e8e54e0207 current state: code is finished for representation 9 maanden geleden
acronym_atlas_abriviation.csv 1cd13fc10c added amba regoins to the mix 1 maand geleden

README.md

Inputs

  • C57BL6_mouse folder: The corresponding atlas folder from DSI Studio. This folder can also be found in the root directory where DSI Studio is installed.
  • C57BL6_mouse_iso.nii.gz: This is the iso NIFTI file created by loading the fib file from the C57BL6_mouse folder and saving the iso part of it as a NIFTI file. This file is equivalent to the C57BL6_mouse.ISO.nii.gz file in the C57BL6_mouse folder, which has a higher resolution. However, since the masks were drawn using the C57BL6_mouse.fib.gz file, this was saved separately.
  • NP_template_sc0.nii.gz: This is our in-house MRI template, also known as MTPL. Reference link to the paper: Frontiers in Neuroinformatics, and the GitHub repository: Aswendt-Lab/AIDAmri - SND_Mask_trafu branch.
  • ABtemplate_website.nii.gz: This was downloaded to be able to overlay it with viral tracing data and compare it with the masks drawn.
  • 12_wks_coronal_100141780_100um_projection_density.nrrd: Containes viral tracing projection data. (fits on ABtemplate_website).