antspymm 0.1.2

multi-channel/time-series medical image processing with antspyx

ANTsPyMM

processing utilities for timeseries/multichannel images - mostly neuroimaging

the outputs of these processes can be used for data inspection/cleaning/triage as well for interrogating hypotheses.

this package also keeps track of the latest preferred algorithm variations for production environments.

install by calling (within the source directory):

python setup.py install

or install via pip install antspymm FIXME

what this will do

• FIXME

the processes FIXME

first time setup

import antspymm
antspymm.get_data()

NOTE: get_data has a force_download option to make sure the latest package data is installed.

example processing

import os
os.environ["TF_NUM_INTEROP_THREADS"] = "8"
os.environ["TF_NUM_INTRAOP_THREADS"] = "8"
os.environ["ITK_GLOBAL_DEFAULT_NUMBER_OF_THREADS"] = "8"

import antspymm
import antspyt1w
import antspynet
import ants


img1 = ants.image_read( antspymm.get_data( "I1499279_Anon_20210819142214_5", target_extension=".nii.gz") )
img2 = ants.image_read( antspymm.get_data( "I1499337_Anon_20210819142214_6", target_extension=".nii.gz") )
dwp = antspymm.dewarp_imageset( [img1,img2] )
# now write out the mean and dewarped images for further processing, eg with dipy

to publish a release

python3 -m build
python -m twine upload -u username -p password  dist/*