banana

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

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Project links

Homepage

Project description

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

Dependencies

Core

arcana
nibabel
pydicom

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

$ pip3 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

This version

0.3

Mar 15, 2019

0.2.6

Feb 3, 2019

0.2.5

Dec 12, 2018

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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