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Removing old viz modules #148
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Documenting files that can be deleted after my PRs approved.
scona/nilearn_plotting.py
graph_to_nilearn_array
plot_connectome_with_nilearn
view_connectome_with_nilearn
view_markers_with_nilearn
All these functions are implemented in PR #145.
scona/make_figures.py
plot_anatomical_network
anatomical_layout
All these functions are Included in PR #140
get_anatomical_layouts
! - Not" This code takes in a BrainNetwork that has x, y, z coordinates and integer node labels (0 to n-1) for n nodes and returns three dictionaries containing appropriate pairs of coordinates for sagittal, coronal and axial slices."
view_corr_mat
- Notscona/scripts/visualisation_commands.py
rescale
- Notview_corr_mat
- NotHave not worked on any of these functions.
view_corr_mat
seems to work fine, so I can easily (hopefully) refactor and include in another file that has all the visualizations. Or this function could be redesigned and useseaborn.heatmap
.scona/scripts/make_figures.py - the one with 4000 lines
plot_rich_club
plot_degree_dist
plot_network_measures
Above 3 functions are included in PR #121
add_colorbar
- included in PR Implementation of anatomical network visualisations #140setup_color_list
- included in PR Implementation of anatomical network visualisations #140plot_anatomical_network
- included in PR Implementation of anatomical network visualisations #140plot_sagittal_network
- seems like a special case ofplot_anatomical_network
?pretty_scatter
- Not"This function creates a scatter plot with a regression line for the y variable against the degrees of graph G"
degree_r_values
- Notcreate_violin_labels
- Not"A little function to create a labels list for the MT depth violin plots"
violin_mt_depths
- Notviolin_add_laminae
- Notold_figure_1
- Notold_figure_2
- Notold_figure_3
- Notpartial_volume_fig
- Notall_mean_mt
- Notnodal_ct_mt
- Notget_von_economo_color_dict
- Notget_von_economo_shapes_dict
- Notvon_economo_boxes
- Notvon_economo_scatter
- Notadd_four_hor_brains
- Notadd_cells_picture
- Notfigure_1
- Notfigure_2
- Notfigure_3
- Notfigure_4
- Notcalc_min_max
- Not" Find min and max values such that all the data lies within 90% of the axis range"
get_min_max_values
- Notplot_circular_network
- Notset_conn_types
- Notrich_edges_nodes
- Notresults_matrix
- Notfigs_for_talk
- Notnetwork_summary_fig
- Notmt_degree_network_fig
- Notrescale
- Notcandidate_histogram
- Notxyz_vs_measures
- Notmake_combo_matrix
- Notmake_combo_scatter
- Notmake_combo_figures
- Notparcellation_4horbrains
- Notmediation_figure
- NotAs far as I understood the code inside this file you developed is especially for your paper. @KirstieJane if you wish to have smth in scona, let me know, and I will do that!
@KirstieJane what would you like to do with:
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