banana

Biomedical imAgiNg ANAlysis (Banana): biomedical imaging analysis workflows implemented in the Arcana framework (arcana.readthedocs.io)

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Project links

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Project description

Biomedical imAgiNg ANAlysis (Banana): a collection of biomedical imaging analysis workflows implemented in the Arcana framework, which can be used to analyse complete study datasets in XNAT, BIDS or plain-directory repositories.

Dependencies

Core

arcana
nibabel
pydicom

Both of these are available on PyPI and can be installed with:

$ pip install banana

Pipelines

Depending on which pipelines you need to run, you may need to install some or all of the following tools. Note that MRtrix3 and Dcm2niix are used for implicit format conversions so are typically required.

MRtrix3 (https://github.com/MRtrix3/mrtrix3)
Dcm2niix (https://github.com/rordenlab/dcm2niix)
FSL (https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/)
Matlab (https://au.mathworks.com/products/matlab.html)
SPM (http://www.fil.ion.ucl.ac.uk/spm/software/spm12/)
ANTs (https://sourceforge.net/projects/advants/)
Freesurfer (https://surfer.nmr.mgh.harvard.edu)
AFNI (https://afni.nimh.nih.gov)

Project details

These details have not been verified by PyPI

Project links

Homepage

Release history Release notifications | RSS feed

0.5.1

Nov 14, 2019

0.5.0

Nov 13, 2019

0.4.2

Jul 29, 2019

0.4.1

Jul 2, 2019

0.4.0

Jun 11, 2019

0.3.15

Jun 8, 2019

0.3.14

Jun 8, 2019

0.3.13

Jun 8, 2019

0.3.12

Jun 8, 2019

0.3.11

Jun 7, 2019

0.3.10

Jun 7, 2019

0.3.9

Jun 7, 2019

0.3.7

May 22, 2019

0.3.6

May 20, 2019

0.3.5

May 10, 2019

0.3.4

May 10, 2019

0.3.3

May 10, 2019

0.3.2

Apr 29, 2019

0.3.1

Apr 28, 2019

0.3

Mar 15, 2019

0.2.6

Feb 3, 2019

0.2.5

Dec 12, 2018

This version

0.2.4

Nov 28, 2018

0.2.3

Oct 28, 2018

0.2.2

Oct 23, 2018

0.2.1

Oct 17, 2018

0.2

Oct 17, 2018

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Download URL: banana-0.2.4-py3-none-any.whl
Upload date: Nov 28, 2018
Size: 130.2 kB
Tags: Python 3
Uploaded using Trusted Publishing? No
Uploaded via: twine/1.12.1 pkginfo/1.4.2 requests/2.18.4 setuptools/40.2.0 requests-toolbelt/0.8.0 tqdm/4.23.3 CPython/2.7.15

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