0.1

[ashishsingh18]

First Release of [NiBAχ], the neuro-imaging brain aging chart.

What's Changed

• Add basic setup by @AbdulkadirA in Add basic setup #1
• Add License by @ashishsingh18 in Add License #2
• Adding GUI, data IO, Model & Plotting functionalities by @ashishsingh18 in Adding GUI, data IO, Model & Plotting functionalities #7
• Add visualization of normative ranges by @AbdulkadirA in Add visualization of normative ranges #9
• Add Close and Quit menu and functionality by @ashishsingh18 in Add Close and Quit menu and functionality #18
• Display data statistics on UI by @ashishsingh18 in Display data statistics on UI #23
• Adding save functionality and UI by @ashishsingh18 in Adding save functionality and UI #26
• Add process & view menu, plotting class by @ashishsingh18 in Add process & view menu, plotting class #30
• Add scatter plot of SPARE-AD and SPARE-BA by @AbdulkadirA in Add scatter plot of SPARE-AD and SPARE-BA #31
• Remove population avg radio button & ok button by @ashishsingh18 in Remove population avg radio button & ok button #37
• Auto data unloading by @ashishsingh18 in Auto data unloading  #38
• Translate MUSE ID into MUSE name and vice-versa by @AbdulkadirA in Translate MUSE ID into MUSE name and vice-versa #43
• Add MUSE dictionary by @AbdulkadirA in Add MUSE dictionary #46
• Display loaded data, model names by @ashishsingh18 in Display loaded data, model names #47
• Add ability to load SPARE-* model by @AbdulkadirA in Add ability to load SPARE-* model #24
• Fix 50 by @AbdulkadirA in Fix 50 #51
• Select columns based on number of sites by @AbdulkadirA in Select columns based on number of sites #53
• Update documentation and PIP requirements by @AbdulkadirA in Update documentation and PIP requirements #54
• Change title of package and application by @AbdulkadirA in Change title of package and application #57
• Add out-of-sample harmonization for new sites by @melhemr in Add out-of-sample harmonization for new sites #56
• Check existence of column by @AbdulkadirA in Check existence of column #59
• Plot SPARE_BA as brain age gap by @AbdulkadirA in Plot SPARE_BA as brain age gap #60
• Add plot of residual MUSE volumes by @AbdulkadirA in Add plot of residual MUSE volumes #61
• Automate installation of requirements by @AbdulkadirA in Automate installation of requirements #58
• Make ROI combo box searchable by @AbdulkadirA in Make ROI combo box searchable #65
• Add longitudinal trends for subset of subjects by @melhemr in Add longitudinal trends for subset of subjects #64
• Set ROI to DLICV if invalid entry is entered by @AbdulkadirA in Set ROI to DLICV if invalid entry is entered #67
• Add all categorical variables as hue option by @AbdulkadirA in Add all categorical variables as hue option #68
• Add plugin toy example by @AbdulkadirA in Add plugin toy example #70
• Provide console script entry point by @AbdulkadirA in Provide console script entry point #69
• Add PyGUItemp by @AbdulkadirA in Add PyGUItemp #72
• Add plugin arch based app by @ashishsingh18 in Add plugin arch based app #73
• Define console script entrypoint for QtBrainChart by @AbdulkadirA in Define console script entrypoint for QtBrainChart #74
• Add SPARE-* plugin by @AbdulkadirA in Add SPARE-* plugin #75
• Prevent application from crashing because of missing column by @AbdulkadirA in Prevent application from crashing because of missing column #76
• Add harmonization residual overview fuction to gui by @melhemr in Add harmonization residual overview fuction to gui #77
• Add age trends plugin, move plotcanvas to core modules by @ashishsingh18 in Add age trends plugin, move plotcanvas to core modules #79
• Add model information to Harmonization tab in GUI by @melhemr in Add model information to Harmonization tab in GUI #80
• Show bounds of neuroHarmonize model by @AbdulkadirA in Show bounds of neuroHarmonize model #81
• Update plot of harmonization by @AbdulkadirA in Update plot of harmonization #82
• Update harmonization plot by @melhemr in Update harmonization plot #84
• Remove default tabs 1 and 2 from GUI main window by @melhemr in Remove default tabs 1 and 2 from GUI main window #85
• Remove customwidget from UI by @melhemr in Remove customwidget from UI #87
• Data window changes by @melhemr in Data window changes #88
• Clean up SPARE-* tab aesthetics by @melhemr in Clean up SPARE-* tab aesthetics #91
• Update harmonization tab and plot by @melhemr in Update harmonization tab and plot #90
• Clean up Age Trends plot by @melhemr in Clean up Age Trends plot #89
• Add searchable combo-boxes to age trends by @AbdulkadirA in Add searchable combo-boxes to age trends #92
• Improve SPARE-* plot by @AbdulkadirA in Improve SPARE-* plot #86
• Fix refresh of plot by @AbdulkadirA in Fix refresh of plot #95
• Add combobox to select ROI in harmonization tab by @melhemr in Add combobox to select ROI in harmonization tab #97
• Fixing minor issues with plots and design by @melhemr in Fixing minor issues with plots and design #98
• Add save data functionality by @AbdulkadirA in Add save data functionality #99
• About dialog & application icon by @ashishsingh18 in About dialog & application icon #100
• Remove Pyguitemp implementation by @AbdulkadirA in Remove Pyguitemp implementation #103
• Correct variable assignment by @melhemr in Correct variable assignment #101
• Disable creation of table by @AbdulkadirA in Disable creation of table #104
• Add data characteristics plugin by @ashishsingh18 in Add data characteristics plugin #107
• Show menu bar on Mac computers by @melhemr in Show menu bar on Mac computers #108
• Re-introduce table view by @AbdulkadirA in Re-introduce table view #109
• Prevent fragmentation of data frame by @AbdulkadirA in Prevent fragmentation of data frame #111
• Fix crash due to missing model by @AbdulkadirA in Fix crash due to missing model #113
• Fix issue where NaNs appeared in data frame by @AbdulkadirA in Fix issue where NaNs appeared in data frame #114
• Add data exploration tool by @AbdulkadirA in Add data exploration tool #115
• Add save, pan, zoom functionality as navigation toolbar to plotcanvas by @ashishsingh18 in Add save, pan, zoom functionality as navigation toolbar to plotcanvas #116
• Enable adding SPARE-* scores to data frame by @AbdulkadirA in Enable adding SPARE-* scores to data frame #119
• Add tab order & fix tab names by @ashishsingh18 in Add tab order & fix tab names #120
• Specify color palettes for plotting by @melhemr in Specify color palettes for plotting #123
• Enable termination of SPARE-* computation by @AbdulkadirA in Enable termination of SPARE-* computation #118
• Add hue to SPARE-* plot by @AbdulkadirA in Add hue to SPARE-* plot #128
• Add figure of harmonization parameters by @melhemr in Add figure of harmonization parameters #125
• Add logging capability by @ashishsingh18 in Add logging capability  #133
• Declutter harmonization plot by @melhemr in Declutter harmonization plot #136
• Add searchable combobox to core.gui by @ashishsingh18 in Add searchable combobox to core.gui #137
• Add gif to markdown to display usage by @melhemr in Add gif to markdown to display usage #141
• Remove old BrainChart and plugins folders by @ashishsingh18 in Remove old BrainChart and plugins folders #142
• Rename QtBrainChartGUI to NiBAx by @ashishsingh18 in Rename QtBrainChartGUI to NiBAx #143
• Add docs skeleton by @ashishsingh18 in Add docs skeleton #144
• Change permission of script by @ashishsingh18 in Change permission of script #145
• Update links by @ashishsingh18 in Update links #146
• Add note of under development and update documentation by @AbdulkadirA in Add note of under development and update documentation #147
• Add basic documentation by @AbdulkadirA in Add basic documentation #148
• Deploy *.svg as binary not Git LFS by @AbdulkadirA in Deploy *.svg as binary not Git LFS #149
• Treat folders as Python packages by @AbdulkadirA in Treat folders as Python packages #150
• Update pillow version by @AbdulkadirA in Update pillow version #152
• Add introduction to top level README by @AbdulkadirA in Add introduction to top level README #153
• Update package versions by @AbdulkadirA in Update package versions #158
• Add *.ui to package data by @AbdulkadirA in Add *.ui to package data #159
• Add more detailed warning of incomplete docs by @AbdulkadirA in Add more detailed warning of incomplete docs #154
• Update numpy version by @AbdulkadirA in Update numpy version #163
• Configure installation with pyproject.toml by @AbdulkadirA in Configure installation with pyproject.toml #164
• Pyproject by @AbdulkadirA in Pyproject #165
• Enable packaging with briefcase by @AbdulkadirA in Enable packaging with briefcase #166
• Rename data plugin to loadsave by @ashishsingh18 in Rename data plugin to loadsave #162
• Derived Harmonized Volumes in Age Trends module by @melhemr in Derived Harmonized Volumes in Age Trends module #167
• Set pandas==1.3.4 for compatibility by @AbdulkadirA in Set pandas==1.3.4 for compatibility #176
• Remove dependence on index for harmonization by @melhemr in Remove dependence on index for harmonization #178
• Adding Unit Tests by @ashishsingh18 in Adding Unit Tests #179
• ROI supertitle for clarity when saving images by @melhemr in ROI supertitle for clarity when saving images #180
• Ignore NaN in max and min functions to create plotting limits by @melhemr in Ignore NaN in max and min functions to create plotting limits #186
• Fix App crashes if data set has only M or only F #185 by @AbdulkadirA in Fix #185 #188
• Dealing with derived volumes in harmonization by @melhemr in Dealing with derived volumes in harmonization #189
• Synthetic datasets/model for testing purposes by @melhemr in Synthetic datasets/model for testing purposes #193
• Add ability to load *.csv files by @AbdulkadirA in Add ability to load *.csv files #187
• Fix loading of data through CLI by @AbdulkadirA in Fix loading of data through CLI #195
• Set specific version of reportlab package by @AbdulkadirA in Set specific version of reportlab package #196
• Improve documentation of preprocessing by @AbdulkadirA in Improve documentation of preprocessing #194
• Add ability to load harmonization model with CLI by @AbdulkadirA in Add ability to load harmonization model with CLI #197
• Instructions for creating a conda enviroment with python3.8.8 by @melhemr in Instructions for creating a conda enviroment with python3.8.8 #181
• Improve Sphinx build documentation by @AbdulkadirA in Improve Sphinx build documentation #199
• Add testing files to user guide for quickstart by @melhemr in Add testing files to user guide for quickstart #202
• Remove system-specific file ending by @AbdulkadirA in Remove system-specific file ending #203
• Fix buttons when using CLI by @melhemr in Fix buttons when using CLI #204
• Add hard-coded model covariates to harmonization process if available by @melhemr in Add hard-coded model covariates to harmonization process if available #205
• Add analytics site tag by @ashishsingh18 in Add analytics site tag #207
• Fix version number and github url in about dialog by @ashishsingh18 in Fix version number and github url in about dialog #209
• Standardize names of synthetic testing files by @melhemr in Standardize names of synthetic testing files #208
• Rename iStaging to NiBAx by @ashishsingh18 in Rename iStaging to NiBAx #211
• Add documentation for harmonization plugin by @melhemr in Add documentation for harmonization plugin #212
• Remove poetry references from setup for briefcase by @melhemr in Remove poetry references from setup for briefcase #213
• Add short description of some plugins by @AbdulkadirA in Add short description of some plugins #200
• Fix path to manifest file by @AbdulkadirA in Fix path to manifest file #215
• Add license message to about section by @AbdulkadirA in Add license message to about section #210
• Add disclaimer and Contact info to readme by @ashishsingh18 in Add disclaimer and Contact info to readme #216
• Add placeholder documentation for one-click installation by @melhemr in Add placeholder documentation for one-click installation #214

New Contributors

• @AbdulkadirA made their first contribution in Add basic setup #1
• @ashishsingh18 made their first contribution in Add License #2
• @melhemr made their first contribution in Add out-of-sample harmonization for new sites #56

Full Changelog: https://github.com/CBICA/NiBAx/commits/0.1

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This discussion was created from the release 0.1.