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

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).