Chris Klink 4c6918ae5b gin commit from chris-mh16 пре 3 година
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BATCH_pRF_PadAndUpsample.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
BATCH_pRF_avg_BOLD_tseries.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
ReadMe.txt 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_AvgSessions.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_AvgSessions_even.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_AvgSessions_odd.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_PrepDatalist_M01.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_PrepDatalist_M02.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_avg_BOLD_tseries.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_prepCrossVal.m 4c6918ae5b gin commit from chris-mh16 пре 3 година
pRF_prepdata_avg.m 4c6918ae5b gin commit from chris-mh16 пре 3 година

ReadMe.txt

====================================
Workflow MRI pRF's
====================================

These pre-fitting scripts are located in the <..>/Analysis_code/MRI folder

1 pRF_prepdata_avg.m (batch: BATCH_pRF_PadAndUpsample.m)
- Takes pRF_PrepDatalist_MONKEY.m as info on what preprocessed fMRI data to load
- Creates timeseries of equal 230 volumes length by inserting NaNs
- Saves as ses-XXXX-230vols.mat
- In <...>/Raw_data/MRI/Raw_matlab/us-padded//

2 pRF_avg_BOLD_tseries.m (batch: BATCH_pRF_avg_BOLD_tseries.m)
- Takes the ses-XXXX-230vols.mat from <...>/Raw_data/MRI/Raw_matlab/us-padded//
- Creates an average timecourse per session
- Saves as medianBOLD_sess-xxxxxx.mat
- In <...>/Raw_data/MRI/Raw_matlab/us-padded//

3 pRF_AvgSessions.m / pRF_AvgSessions_odd.m / pRF_AvgSessions_even.m
- Takes the medianBOLD_sess-xxxxxx.mat from <...>/Raw_data/MRI/Raw_matlab/us-padded//
- Averages across sessions
- Saves as AllSessions-avg.mat / AllSessions-avg-odd.mat / AllSessions-avg-even.mat
- Copies these files to <...>/Preprocessed_data/MRI//

4 pRF_prepCrossVal.m
- Takes AllSessions-avg-odd.mat & AllSessions-avg-even.mat from <...>/Preprocessed_data/MRI//
- Restructures
- Saves as AllSessions-avg-cv.mat
- In <...>/Preprocessed_data/MRI//

5 Copy <...>/Preprocessed_data/MRI//AllSessions-avg-cv.mat to LISA <...>/PRF/Data/MRI/cv//
Run fits on LISA
Copy fit results from LISA <...>/PRF/Results/ back to local <..>/FitResults/MRI//

6 Continue analysis in <..>/Analysis_code/PostFit
datacite.yml
Title Population receptive fields in non-human primates from whole-brain fMRI and large-scale neurophysiology in visual cortex.
Authors Klink,Chris;Netherlands Institute for Neuroscience;ORCID:0000-0002-6784-7842
Chen,Xing;Netherlands Institute for Neuroscience
Vanduffel,Wim;KU Leuven;ORCID:0000-0002-9399-343X
Roelfsema,Pieter;Netherlands Institute for Neuroscience;ORCID:0000-0002-1625-0034
Description This data-set contains all data and code for the paper 'Population receptive fields in non-human primates from whole-brain fMRI and large-scale neurophysiology in visual cortex.'
License Creative Commons CC0 1.0 Public Domain Dedication (https://creativecommons.org/publicdomain/zero/1.0/)
References Direct comparison of population receptive fields from fMRI and large-scale neurophysiological recordings in awake non-human primates. (2020) P. Christiaan Klink, Xing Chen, Wim Vanduffel, Pieter R. Roelfsema; bioRxiv 2020.09.05.284133; doi: https://doi.org/10.1101/2020.09.05.284133 [doi:10.1101/2020.09.05.284133] (IsSupplementTo)
Funding NWO, Crossover Program 17619 'INTENSE'
NWO, STW-Perspectief P15-42 'NESTOR'
NWO, VENI 451.13.023
EU FP7, ERC-339490 'Cortic_al_gorithms'
EU, Human Brain Project (agreements 720270 and 748 785907, SGA1 and SGA2)
Friends Foundation of the Netherlands Institute for Neuroscience
Keywords Neuroscience
Neuroimaging
Neurophysiology
Non-human primate
Population receptive field
Resource Type Dataset