ktavabi

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ktavabi

Project Title

One Paragraph of project description goes here

Getting Started

These instructions will get you a copy of the project up and running on your local machine for development and testing purposes. See deployment for notes on how to deploy the project on a live system.

Prerequisites

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for si, subj in enumerate(subjects):
    evoked = read_evokeds(evoked_file, baseline=(None,0))
    evoked.pick_types(meg='grad', eeg=False, stim=False, eog=True,
                      include=[], exclude=[])
    # Store data in ndarray
    if subj == subjects[0]:
        erf_data = np.zeros((len(subjects), len(evoked.info['chs']),
                            len(evoked.times)))
    erf_data[si] = evoked.data # nsubj x chs x time

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# -*- coding: utf-8 -*-

""" Testing script for cHPI SNR weighted averaging ELEKTA phantom data """

# Authors: Kambiz Tavabi <ktavabi@uw.edu>

import os
import mne
import numpy as np
from matplotlib import pyplot as plt

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"""For each individual ERF data test if the signal across gradiometers
   significantly deviates from 0 in the interval 175-250ms post-stimulus
   onset, i.e., reliability of evoked response."""

import os
from os import path as op
import matplotlib.pyplot as plt
import numpy as np
from scipy.fftpack import fft
import mne

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"""
usage: python remove_output.py notebook.ipynb [ > without_output.ipynb ]


"""
import sys
import io
from IPython.nbformat import current

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# query nvidia card
lspci -vnn | grep -i VGA -A 12

# install nvidia driver 352.63
sudo apt-get install nvidia-352
sudo reboot

# Download OS-Arch CUDA Toolkit package from https://developer.nvidia.com/cuda-downloads
cd ~/Downloads
wget -O cuda.deb http://developer.download.nvidia.com/compute/cuda/7.5/Prod/local_installers/cuda-repo-ubuntu1404-7-5-local_7.5-18_amd64.deb

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import numpy as np
from os import path as op
from matplotlib import pyplot as plt
from mpl_toolkits.mplot3d import Axes3D
import mne
from mne.bem import (_fit_sphere, fit_sphere_to_headshape)

def transform(loc_headcoord_subj, ctr_sphere_headcoord_subj, rad_template,
              ctr_sphere_headcoord_template, rad_subj):
    # remove offset to sphere from head coordinates (+RAS)

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