PREREQ

data

for physio see https://github.com/WillForan/processPhysio_matlab/blob/master/physio_proc_wallace.m
for preprocessing see local
- see ~/src/restPreproc/ to generate rest_preproc_mni.nii.gz (find /data/Luna1/Reward/Rest -name rest_preproc_mni.nii.gz )
need mni template and 244 ROIs

the rest we make (see Data)

install/using drake

install lein and drip

curl https://raw.github.com/technomancy/leiningen/stable/bin/lein > ~/bin/lein
curl -L http://drip.flatland.org > ~/bin/drip
# add export "PATH=$PATH:~/bin" to .bashrc/.profile/.zshrc/whatever if it's not there

get drake

git clone [email protected]:Factual/drake.git
cd drake && lein uberjar
echo "export PATH=$PATH:$(pwd)/bin" >> ~/.bashrc
. ~/.bashrc

run
drake

Brain Viewer

matlab octave(?): BrainNet.m http://www.nitrc.org/projects/bnv

using orgmode

this file is written for org-mode see emacs and http://orgmode.org/worg/index.html

Analysis

Predefined Development ROIs

FEF (174)	SEF (213)	3.99	Flat when phsyio regressors not included
SEF (213)	IFG (241)	2.832	Flat when physio regressors not included

Highest ageXphysio interaction tvalue

Data

Physio

https://github.com/WillForan/processPhysio_matlab

Rest

https://github.com/LabNeuroCogDevel/restPreproc

Test

Process is based on Aarthi’s preprocessing (Skynet:Phillips/rest_preproc_redo_AP) which is replicated by scotts (rest_preproc_redo_SM) This is validated with subject 10845. Subject 10152 is different though. See ../rest_preproc_nophysio_withphysiotest

Files

Drakefile	prodedure to make data
IDSexDOBVisitAge.txt	subject information
bb244MNI_LPI_2mm.nii.gz	get roi averages for each time point and each bb244
bb244_coordinate	LPI list of coords
txt/*	txt outputs
txt/subjectInpipelines.txt	breakdown of subjects, now used as who to include
txt/____	long format of each ROI ROI corr for 244 in each subject for all pipelines
txt/bb244Stats_mni/*	nz means for each ROI (bb244, order as 256)
txt/ROIROI_median/	intermediate output of getCor.jl, median corr for each ROI

Sig

using |t|>2.58 see bottom of 03_comp_perROIROI.R

Changes

10 TR sliding window correlation median,

all signficant ROI-ROI: 246+, 110- (inv age)
developmental ROI-ROI signficant interactions were limited to SEF correlation to FEF and IFG

all steps correlated

developmental ROI-ROI signficant interactions were limited to FEF to Putanment and dACC

smarek0502 / physiocompare Goto Github PK

physiocompare's Introduction