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Overview
Introduction
Installation
PIT
Quick start
Data formats and data loading
Using the console
Accessing presented data
Other
Plugins
The config directory
ipython crash course
Widgets
Examples
Contributing
Code reference
data_slicer package
data-slicer
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Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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K
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L
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M
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N
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O
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P
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R
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S
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T
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U
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W
A
add_text() (data_slicer.imageplot.Scalebar method)
add_to() (data_slicer.imageplot.Crosshair method)
add_to_plot() (data_slicer.cutline.Cutline method)
align() (data_slicer.imageplot.MPLExportDialog method)
(data_slicer.widgets.ColorSliders method)
(data_slicer.widgets.FreeSliceWidget method)
(data_slicer.widgets.ThreeDSliceWidget method)
(data_slicer.widgets.ThreeDWidget method)
apply_transformations() (data_slicer.cmaps.ds_cmap_legacy method)
B
brain() (data_slicer.pit.MainWindow method)
C
calculate_endpoints() (data_slicer.cutline.Cutline method)
calculate_integrated_intensity() (data_slicer.pit.PITDataHandler method)
calculate_model_data() (data_slicer.model.Model method)
cmap_changed() (data_slicer.pit.MainWindow method)
ColorSliders (class in data_slicer.widgets)
convert_ds_to_matplotlib() (in module data_slicer.cmaps)
convert_matplotlib_to_pyqtgraph() (in module data_slicer.cmaps)
Crosshair (class in data_slicer.imageplot)
CrosshairImagePlot (class in data_slicer.imageplot)
CursorPlot (class in data_slicer.imageplot)
CustomizableHandle (class in data_slicer.cutline)
CustomizableLineSegmentROI (class in data_slicer.cutline)
Cutline (class in data_slicer.cutline)
D
data_slicer.cmaps (module)
data_slicer.cutline (module)
data_slicer.dataloading (module)
data_slicer.dsviewbox (module)
data_slicer.imageplot (module)
data_slicer.model (module)
data_slicer.pit (module)
data_slicer.plugin (module)
data_slicer.set_up_logging (module)
data_slicer.utilities (module)
data_slicer.widgets (module)
Dataloader (class in data_slicer.dataloading)
Dataloader_3dtxt (class in data_slicer.dataloading)
Dataloader_Pickle (class in data_slicer.dataloading)
ds_cmap (class in data_slicer.cmaps)
ds_cmap_legacy (class in data_slicer.cmaps)
DSViewBox (class in data_slicer.dsviewbox)
DSViewBoxMenu (class in data_slicer.dsviewbox)
dump() (in module data_slicer.dataloading)
E
EmbedIPython (class in data_slicer.pit)
F
figheight (data_slicer.imageplot.MPLExportDialog attribute)
figwidth (data_slicer.imageplot.MPLExportDialog attribute)
find_closest_allowed() (data_slicer.utilities.TracedVariable method)
fix_viewrange() (data_slicer.imageplot.ImagePlot method)
flip_orientation() (data_slicer.cutline.Cutline method)
FreeSliceWidget (class in data_slicer.widgets)
G
get_array_region() (data_slicer.cutline.Cutline method)
get_axes_dims() (data_slicer.model.Model method)
get_config_dir() (data_slicer.pit.PITDataHandler method)
get_contours() (in module data_slicer.utilities)
get_cut_data() (data_slicer.pit.PITDataHandler method)
get_cutline_cut() (data_slicer.widgets.FreeSliceWidget method)
get_data() (data_slicer.imageplot.CursorPlot method)
(data_slicer.pit.PITDataHandler method)
get_hprofile() (data_slicer.pit.PITDataHandler method)
get_iprofile() (data_slicer.pit.PITDataHandler method)
get_isocurve() (data_slicer.model.Model method)
get_limits() (data_slicer.imageplot.ImagePlot method)
get_lines() (in module data_slicer.utilities)
get_main_data() (data_slicer.pit.PITDataHandler method)
get_slice() (data_slicer.widgets.ThreeDWidget method)
get_value() (data_slicer.utilities.TracedVariable method)
get_values_around() (data_slicer.model.Model method)
get_vprofile() (data_slicer.pit.PITDataHandler method)
get_xy_slice() (data_slicer.widgets.ThreeDWidget method)
get_yz_slice() (data_slicer.widgets.ThreeDSliceWidget method)
get_zx_slice() (data_slicer.widgets.ThreeDSliceWidget method)
H
help() (data_slicer.plugin.Plugin method)
hover_color (data_slicer.imageplot.CursorPlot attribute)
hoverEvent() (data_slicer.cutline.CustomizableHandle method)
I
ImagePlot (class in data_slicer.imageplot)
increase_pos() (data_slicer.imageplot.CursorPlot method)
increase_width() (data_slicer.imageplot.CursorPlot method)
indexof() (in module data_slicer.utilities)
initialize() (data_slicer.cutline.Cutline method)
initialize_xy() (data_slicer.widgets.ThreeDWidget method)
initialize_yz() (data_slicer.widgets.ThreeDSliceWidget method)
initialize_zx() (data_slicer.widgets.ThreeDSliceWidget method)
K
keyPressEvent() (data_slicer.imageplot.CursorPlot method)
(data_slicer.imageplot.Scalebar method)
(data_slicer.pit.MainWindow method)
L
lineplot() (data_slicer.imageplot.ImagePlot method)
(data_slicer.pit.PITDataHandler method)
load() (data_slicer.pit.PITDataHandler method)
load_cmap() (in module data_slicer.cmaps)
load_custom_cmap() (in module data_slicer.cmaps)
load_data() (data_slicer.dataloading.Dataloader method)
(data_slicer.dataloading.Dataloader_3dtxt method)
(data_slicer.dataloading.Dataloader_Pickle method)
(in module data_slicer.dataloading)
load_pickle() (in module data_slicer.dataloading)
load_plugin() (data_slicer.pit.MainWindow method)
load_startup_data() (data_slicer.pit.MainWindow method)
load_user_cmaps() (in module data_slicer.cmaps)
M
MainWindow (class in data_slicer.pit)
make_slice() (data_slicer.model.Model method)
(in module data_slicer.utilities)
make_slice_3d() (in module data_slicer.utilities)
make_texture() (data_slicer.widgets.ThreeDWidget method)
MIN_AXIS_LENGTH (data_slicer.model.Model attribute)
Model (class in data_slicer.model)
ModelError
mousePressEvent() (data_slicer.imageplot.ImagePlot method)
move_to() (data_slicer.imageplot.Crosshair method)
mpl_export() (data_slicer.imageplot.ImagePlot method)
MPLExportDialog (class in data_slicer.imageplot)
N
name (data_slicer.dataloading.Dataloader attribute)
(data_slicer.dataloading.Dataloader_3dtxt attribute)
(data_slicer.dataloading.Dataloader_Pickle attribute)
(data_slicer.plugin.Plugin attribute)
O
on_allowed_values_change() (data_slicer.imageplot.CursorPlot method)
on_allowed_values_changed() (data_slicer.imageplot.Scalebar method)
on_change() (data_slicer.utilities.TracedVariable method)
on_cutline_initialized() (data_slicer.pit.MainWindow method)
on_data_change() (data_slicer.pit.PITDataHandler method)
on_dragged_h() (data_slicer.imageplot.Crosshair method)
on_dragged_v() (data_slicer.imageplot.Crosshair method)
on_gamma_slider_move() (data_slicer.pit.MainWindow method)
(data_slicer.widgets.ColorSliders method)
on_mouse_move() (data_slicer.imageplot.ImagePlot method)
on_position_change() (data_slicer.imageplot.CursorPlot method)
on_read() (data_slicer.utilities.TracedVariable method)
on_vmax_slider_move() (data_slicer.pit.MainWindow method)
(data_slicer.widgets.ColorSliders method)
on_z_dim_change() (data_slicer.pit.PITDataHandler method)
open() (data_slicer.pit.PITDataHandler method)
orientate() (data_slicer.imageplot.CursorPlot method)
overlay_model() (data_slicer.pit.PITDataHandler method)
P
PITDataHandler (class in data_slicer.pit)
plot_all_slices() (data_slicer.pit.PITDataHandler method)
plot_cuts() (in module data_slicer.utilities)
plot_preview() (data_slicer.imageplot.MPLExportDialog method)
Plugin (class in data_slicer.plugin)
pop_kwarg() (in module data_slicer.utilities)
prepare_axes() (data_slicer.pit.PITDataHandler method)
prepare_data() (data_slicer.pit.PITDataHandler method)
print_m() (data_slicer.dataloading.Dataloader method)
print_to_console() (data_slicer.pit.MainWindow method)
R
recenter() (data_slicer.cutline.Cutline method)
redraw_plots() (data_slicer.pit.MainWindow method)
register_traced_variable() (data_slicer.imageplot.CursorPlot method)
release_viewrange() (data_slicer.imageplot.ImagePlot method)
remove_from() (data_slicer.imageplot.Crosshair method)
remove_image() (data_slicer.imageplot.ImagePlot method)
remove_model() (data_slicer.pit.PITDataHandler method)
reset_data() (data_slicer.pit.PITDataHandler method)
roll_array() (in module data_slicer.utilities)
roll_axes() (data_slicer.pit.PITDataHandler method)
rotate() (data_slicer.imageplot.ImagePlot method)
(data_slicer.pit.MainWindow method)
S
Scalebar (class in data_slicer.imageplot)
set_allowed_values() (data_slicer.utilities.TracedVariable method)
set_alpha() (data_slicer.cmaps.ds_cmap method)
(data_slicer.cmaps.ds_cmap_legacy method)
(data_slicer.pit.MainWindow method)
set_axes() (data_slicer.model.Model method)
(data_slicer.pit.MainWindow method)
set_axis() (data_slicer.model.Model method)
set_bounds() (data_slicer.imageplot.Crosshair method)
(data_slicer.imageplot.CrosshairImagePlot method)
(data_slicer.imageplot.CursorPlot method)
set_cmap() (data_slicer.pit.MainWindow method)
(data_slicer.widgets.ThreeDWidget method)
set_color() (data_slicer.imageplot.Crosshair method)
set_coordinate_axes() (data_slicer.widgets.ThreeDWidget method)
set_data() (data_slicer.pit.PITDataHandler method)
(data_slicer.widgets.ThreeDWidget method)
set_gamma() (data_slicer.cmaps.ds_cmap method)
(data_slicer.cmaps.ds_cmap_legacy method)
(data_slicer.pit.MainWindow method)
set_handle_style() (data_slicer.cutline.Cutline method)
set_hover_pen() (data_slicer.cutline.CustomizableHandle method)
(data_slicer.cutline.CustomizableLineSegmentROI method)
set_image() (data_slicer.imageplot.ImagePlot method)
(data_slicer.pit.MainWindow method)
set_model() (data_slicer.model.Model method)
set_movable() (data_slicer.imageplot.Crosshair method)
set_position() (data_slicer.imageplot.CursorPlot method)
set_relative_position() (data_slicer.imageplot.Scalebar method)
set_secondary_axis() (data_slicer.imageplot.CursorPlot method)
set_size() (data_slicer.imageplot.Scalebar method)
set_slider_pen() (data_slicer.imageplot.CursorPlot method)
set_value() (data_slicer.utilities.TracedVariable method)
set_vmax() (data_slicer.cmaps.ds_cmap_legacy method)
(data_slicer.pit.MainWindow method)
set_xlabel() (data_slicer.imageplot.ImagePlot method)
set_xscale() (data_slicer.imageplot.ImagePlot method)
set_ylabel() (data_slicer.imageplot.ImagePlot method)
set_yscale() (data_slicer.imageplot.ImagePlot method)
shortname (data_slicer.plugin.Plugin attribute)
show_cursor() (data_slicer.imageplot.ImagePlot method)
sig_allowed_values_changed (data_slicer.utilities.TracedVariable attribute)
sig_axes_changed (data_slicer.imageplot.ImagePlot attribute)
sig_clicked (data_slicer.imageplot.ImagePlot attribute)
sig_gamma_changed (data_slicer.widgets.ColorSliders attribute)
sig_image_changed (data_slicer.imageplot.ImagePlot attribute)
sig_initialized (data_slicer.cutline.Cutline attribute)
sig_value_changed (data_slicer.utilities.TracedVariable attribute)
sig_value_read (data_slicer.utilities.TracedVariable attribute)
sig_vmax_changed (data_slicer.widgets.ColorSliders attribute)
size (data_slicer.pit.MainWindow attribute)
start_main_window() (in module data_slicer.pit)
T
three_d_to_txt() (in module data_slicer.dataloading)
ThreeDSliceWidget (class in data_slicer.widgets)
ThreeDWidget (class in data_slicer.widgets)
title (data_slicer.pit.MainWindow attribute)
toggle_cursor() (data_slicer.imageplot.ImagePlot method)
TracedVariable (class in data_slicer.utilities)
transpose() (data_slicer.imageplot.ImagePlot method)
(data_slicer.pit.MainWindow method)
U
UndefinedAxisError
UndefinedModelError
update_allowed_values() (data_slicer.imageplot.CrosshairImagePlot method)
update_cut() (data_slicer.pit.MainWindow method)
(data_slicer.widgets.FreeSliceWidget method)
update_image_data() (data_slicer.pit.PITDataHandler method)
update_main_plot() (data_slicer.pit.MainWindow method)
update_position_h() (data_slicer.imageplot.Crosshair method)
update_position_v() (data_slicer.imageplot.Crosshair method)
update_selector() (data_slicer.widgets.FreeSliceWidget method)
update_x_plot() (data_slicer.pit.MainWindow method)
update_xy() (data_slicer.widgets.ThreeDWidget method)
update_xy_plots() (data_slicer.pit.MainWindow method)
update_y_plot() (data_slicer.pit.MainWindow method)
update_yz() (data_slicer.widgets.ThreeDSliceWidget method)
update_z_range() (data_slicer.pit.PITDataHandler method)
update_zx() (data_slicer.widgets.ThreeDSliceWidget method)
W
wheelEvent() (data_slicer.imageplot.CursorPlot method)
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