Name		Name	Last commit message	Last commit date
01a_aepet2_setup.sh		01a_aepet2_setup.sh
01b_aepet2_behave.sh		01b_aepet2_behave.sh
02_freesurfer_parcels.sh		02_freesurfer_parcels.sh
03_convert_bet.sh		03_convert_bet.sh
05_run_fmriqa.sh		05_run_fmriqa.sh
07_connectivity.Rproj		07_connectivity.Rproj
07_copy_bids_conn.sh		07_copy_bids_conn.sh
07_denoise_prepro.sh		07_denoise_prepro.sh
07_gen_nuisance.sh		07_gen_nuisance.sh
07a1_extract_ts.sh		07a1_extract_ts.sh
07a2_calc_conn.sh		07a2_calc_conn.sh
07b1_run_fir.sh		07b1_run_fir.sh
07b2_extract_ts.sh		07b2_extract_ts.sh
07b3_calc_schaefer_conn.Rmd		07b3_calc_schaefer_conn.Rmd
07b4_comp_conn.Rmd		07b4_comp_conn.Rmd
07b4_comp_conn.html		07b4_comp_conn.html
07c1_rest_wbconn_hip_lvl1.sh		07c1_rest_wbconn_hip_lvl1.sh
07c2_rest_wbconn_hip_group.sh		07c2_rest_wbconn_hip_group.sh
LICENSE		LICENSE
README.md		README.md
calc_conn.m		calc_conn.m
compile_mvmt.m		compile_mvmt.m
create_nuisance.m		create_nuisance.m
split_rois.m		split_rois.m
wrapper_script.sh		wrapper_script.sh

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co_methods

This project contains the code for...

General preprocessing of fMRI brain images on the University of Oregon's high-performance computing cluster
Removing task-related activations from fMRI brain activity using- a) low-pass filtering to remove task-related frequencies from the brain signal, and b) extracting the residuals of a general linear model of task-related events
Calculating region-to-region resting-state connectivity and background connectivity using each of the methods for removing task-related activity
Comparing connectivity between the two background connectivity methods to see which is better for reproducing resting-state connectivity patterns

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Analysis scripts for project comparing methods for background connectivity (data not included)

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