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README.md

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 # C3a_PT_8wks_T2w_rsfMRI
+Longitudinal MRI including T2-weighted (T2w) and resting-state functional MRI (rs-fMRI) of WT mice with cortical stroke lesions induced by photothrombosis (PT) monitored for 8 weeks (8 wks). The mice received either intranasal C3a (complement factor) or PBS treatment from day 7 to day 28 post stroke.
+## Files:
+* MRI_raw_data - contains all raw data in Bruker 2dseq format and the original Bruker folder structure
+* MRI_proc_data - contains all data processed with the [AIDAmri](https://github.com/maswendt/AIDAmri) pipeline. Processing steps: define stroke masks, convert Bruker to NIfTI-1 data format, image re-orientation, bias-field correction, brain extraction, region-of-interest segmentation, registration with the [Allen Mouse Brain Atlas](https://www.nature.com/articles/nature05453)[ (CCFv3)](http://help.brain-map.org/display/mousebrain/Documentation), functional connectivity analysis. 
 
-Longitudinal MRI including T2-weighted (T2w) and resting-state functional MRI (rs-fMRI) of WT mice with cortical stroke lesions induced by photothrombosis (PT) monitored for 8 weeks (8 wks). The mice received either intranasal C3a (complement factor) or PBS treatment from day 7 to day 28 post stroke.
+## Authors:
+Markus Aswendt, Olivia Käsgen, Frederique Wieters, Michael Diedenhofen, Dirk Wiedermann