Utilities in mcutils package¶

This package contains a wide variety of utilities and scripts.

After installation the scripts will be available by running mc_script. On jalapeno the latest version is available without installation using ~ndcn0236/bin/mc_script.

Many python utilities are also available.

Pipeline

`pipe`
`cudimot`	Manages filetrees for a CUDIMOT fit of the data
`register.multi_image`	Registers multiple images to each other
`hcp_dir`	Standard directory structures used in neuroimaging

Plotting

`plot`	Helper functions to produce nicer plots
`utils.colour`

Maths

`utils.noise`
`utils.hypergeometry`
`utils.kmedoids`	Computes the k-medoids
`utils.spherical`	Defines functions to work with spherical coordinates

Input/Output

`utils.cifti`
`utils.greyordinate`
`utils.write_gifti`
`utils.trajectory`	Reads Camino trajectory files
`utils.sidecar`	Implements the xps data structure described by Markus Nilsson (https://github.com/markus-nilsson/md-dmri/blob/master/mdm/readme.txt)
`utils.wb_scene`	Support for workbench Scene files

Not neuroimage

`sync`	Utility function to deal with the directory structure.
`utils.log`
`utils.bibtex`
`utils.scripts`	Utilities to create a common interface to all the scripts