to_dataframe¶

Usage

Run using mc_script to_dataframe after installation or using ~ndcn0236/bin/mc_script to_dataframe on jalapeno.

Import in python using from mcutils.scripts import to_dataframe

Documentation

Converts a NIFTI/GIFTI/CIFTI file into a pandas dataframe

Each non-masked greyordinate (i.e., voxel or vertex) becomes one line in the resulting dataframe. Each file becomes a column.

The output dataframe will be stored in the feather format, which is a language agnostic format for storing tables (https://blog.rstudio.com/2016/03/29/feather/)

Functions

`convert_filenames`(filenames[, vol_mask, …])	Converts the list of filenames into a single pandas dataframe
`dataframe_to_array`(dataframe, names)	Writes a dataframe back to disc
`from_cifti`(filename[, basename])	Converts a cifti file into a pandas dataframe
`from_gifti`(img[, mask, hemisphere, basename])	Converts a GIFTI image into a pandas dataframe
`from_nifti`(img[, mask, name])	Converts a NIFTI image into a pandas dataframe
`to_nifti`(dataframe, names, reference)	Writes the data from a pandas dataframe to a NIFTI file on disc

CLI interface

`add_to_parser`(parser)	Creates the parser of the command line arguments
`run_from_args`(args)	Runs the script based on a Namespace containing the command line arguments