Tools/Overview.md

+
+## Overview
+
+the `+tools` package contains utilities essential for the proper functioning of ViNERS, file I/O, graphics helpers, some statistical utilities, and some other miscellanea. See also [+mesh](Mesh/Overview), [+models](Models/Overview), and [+plots](Plots/Overview). 
+
+## Contents
+
+Core utilities: 
+- [tools.file](file.m)
+- [tools.cache](cache.m)
+- [tools.configuration](configuration.m)
+- [tools.model_status](model_status.m)
+- [tools.makeFromTemplate](make_from_template.m)
+
+Data structure management:
+- [tools.make_SPARC_subject](make_SPARC_subject.m)
+- [tools.gather](gather.m)
+
+Statistical utilities: 
+- [tools.sequential_F_test](sequential_F_test.m)
+- [tools.stat_line](stat_line.m)
+
+Internal utilities:
+- `tools.setupChronux` (see http://chronux.org/)
+- `tools.setupEIDORS` (see http://eidors3d.sourceforge.net/)
+- [tools.opts_to_args](opts_to_args.m)
+- `tools.parse_arguments`
+- `tools.parse_json`
+- `tools.parse_xml`
+- `tools.semaphore`
+- `tools.from_trajectory`
+- `tools.detrend_wave`
+- [tools.load_Ve_field](load_Ve_field.m)
+- `tools.get_example_cachefiles` (todo: rename)
+- `tools.read_NRN_datfile`
+
+Graphics utilities: 
+- [tools.magma](https://bids.github.io/colormap/)
+- `tools.suptitle`
+- `tools.tidyPlot`
+
+Other miscellaneous pieces of code: 
+- `tools.make_SPARC_structure`
+- `tools.INPUT_file` (note: I plan to remove this)
+- `tools.check_properties`
+- `tools.peakseek`
+- `tools.printInfo`
+- `tools.octave_init`
+- `tools.export_H5XP_file`
+- `tools.export_NSx_file`
+
+Temporary [Sidebar link](_sidebar)