Gridded Datasets II

import numpy as np
import xarray as xr
import holoviews as hv
import geoviews as gv
import geoviews.feature as gf

from geoviews import opts
from cartopy import crs as ccrs

gv.extension('matplotlib', 'bokeh')

gv.output(size=200)

Alert: Some widgets in this notebook are set to render dynamically and require a live notebook server. If you're viewing this notebook on a static website, the widgets won't respond.

The main strength of HoloViews and its extensions (like GeoViews) is the ability to quickly explore complex datasets by declaring lower-dimensional views into a higher-dimensional space. In HoloViews we refer to the interface that allows you to do this as the conversion API. To begin with we will load a multi-dimensional dataset of surface temperatures for different “realizations” (modelling parameters) using XArray:

xr_ensembles = xr.open_dataset('../data/ensembles.nc')
xr_ensembles

<xarray.Dataset> Size: 9MB
Dimensions:                  (realization: 13, time: 6, latitude: 145,
                              longitude: 192, bnds: 2)
Coordinates:
  * realization              (realization) int32 52B 0 1 2 3 4 ... 9 10 11 12 13
  * time                     (time) datetime64[ns] 48B 2011-08-16T12:00:00 .....
  * latitude                 (latitude) float32 580B -90.0 -88.75 ... 88.75 90.0
  * longitude                (longitude) float32 768B 0.0 1.875 ... 356.2 358.1
    forecast_reference_time  (realization, time) datetime64[ns] 624B ...
Dimensions without coordinates: bnds
Data variables:
    surface_temperature      (realization, time, latitude, longitude) float32 9MB ...
    latitude_longitude       int32 4B ...
    time_bnds                (time, bnds) datetime64[ns] 96B ...
Attributes:
    source:       Data from Met Office Unified Model
    um_version:   7.6
    Conventions:  CF-1.5

xarray.Dataset

• Dimensions:
  • realization: 13
  • time: 6
  • latitude: 145
  • longitude: 192
  • bnds: 2
• Coordinates: (5)
  • realization
    (realization)
    int32
    0 1 2 3 4 5 7 8 9 10 11 12 13

    units :

    1

    standard_name :

    realization

    array([ 0,  1,  2,  3,  4,  5,  7,  8,  9, 10, 11, 12, 13], dtype=int32)

  • time
    (time)
    datetime64[ns]
    2011-08-16T12:00:00 ... 2012-01-...

    axis :

    T

    bounds :

    time_bnds

    standard_name :

    time

    array(['2011-08-16T12:00:00.000000000', '2011-09-16T00:00:00.000000000',
           '2011-10-16T12:00:00.000000000', '2011-11-16T00:00:00.000000000',
           '2011-12-16T12:00:00.000000000', '2012-01-16T12:00:00.000000000'],
          dtype='datetime64[ns]')

  • latitude
    (latitude)
    float32
    -90.0 -88.75 -87.5 ... 88.75 90.0

    axis :

    Y

    units :

    degrees_north

    standard_name :

    latitude

    array([-90.  , -88.75, -87.5 , -86.25, -85.  , -83.75, -82.5 , -81.25, -80.  ,
           -78.75, -77.5 , -76.25, -75.  , -73.75, -72.5 , -71.25, -70.  , -68.75,
           -67.5 , -66.25, -65.  , -63.75, -62.5 , -61.25, -60.  , -58.75, -57.5 ,
           -56.25, -55.  , -53.75, -52.5 , -51.25, -50.  , -48.75, -47.5 , -46.25,
           -45.  , -43.75, -42.5 , -41.25, -40.  , -38.75, -37.5 , -36.25, -35.  ,
           -33.75, -32.5 , -31.25, -30.  , -28.75, -27.5 , -26.25, -25.  , -23.75,
           -22.5 , -21.25, -20.  , -18.75, -17.5 , -16.25, -15.  , -13.75, -12.5 ,
           -11.25, -10.  ,  -8.75,  -7.5 ,  -6.25,  -5.  ,  -3.75,  -2.5 ,  -1.25,
             0.  ,   1.25,   2.5 ,   3.75,   5.  ,   6.25,   7.5 ,   8.75,  10.  ,
            11.25,  12.5 ,  13.75,  15.  ,  16.25,  17.5 ,  18.75,  20.  ,  21.25,
            22.5 ,  23.75,  25.  ,  26.25,  27.5 ,  28.75,  30.  ,  31.25,  32.5 ,
            33.75,  35.  ,  36.25,  37.5 ,  38.75,  40.  ,  41.25,  42.5 ,  43.75,
            45.  ,  46.25,  47.5 ,  48.75,  50.  ,  51.25,  52.5 ,  53.75,  55.  ,
            56.25,  57.5 ,  58.75,  60.  ,  61.25,  62.5 ,  63.75,  65.  ,  66.25,
            67.5 ,  68.75,  70.  ,  71.25,  72.5 ,  73.75,  75.  ,  76.25,  77.5 ,
            78.75,  80.  ,  81.25,  82.5 ,  83.75,  85.  ,  86.25,  87.5 ,  88.75,
            90.  ], dtype=float32)

  • longitude
    (longitude)
    float32
    0.0 1.875 3.75 ... 356.2 358.1

    axis :

    X

    units :

    degrees_east

    standard_name :

    longitude

    array([  0.   ,   1.875,   3.75 ,   5.625,   7.5  ,   9.375,  11.25 ,  13.125,
            15.   ,  16.875,  18.75 ,  20.625,  22.5  ,  24.375,  26.25 ,  28.125,
            30.   ,  31.875,  33.75 ,  35.625,  37.5  ,  39.375,  41.25 ,  43.125,
            45.   ,  46.875,  48.75 ,  50.625,  52.5  ,  54.375,  56.25 ,  58.125,
            60.   ,  61.875,  63.75 ,  65.625,  67.5  ,  69.375,  71.25 ,  73.125,
            75.   ,  76.875,  78.75 ,  80.625,  82.5  ,  84.375,  86.25 ,  88.125,
            90.   ,  91.875,  93.75 ,  95.625,  97.5  ,  99.375, 101.25 , 103.125,
           105.   , 106.875, 108.75 , 110.625, 112.5  , 114.375, 116.25 , 118.125,
           120.   , 121.875, 123.75 , 125.625, 127.5  , 129.375, 131.25 , 133.125,
           135.   , 136.875, 138.75 , 140.625, 142.5  , 144.375, 146.25 , 148.125,
           150.   , 151.875, 153.75 , 155.625, 157.5  , 159.375, 161.25 , 163.125,
           165.   , 166.875, 168.75 , 170.625, 172.5  , 174.375, 176.25 , 178.125,
           180.   , 181.875, 183.75 , 185.625, 187.5  , 189.375, 191.25 , 193.125,
           195.   , 196.875, 198.75 , 200.625, 202.5  , 204.375, 206.25 , 208.125,
           210.   , 211.875, 213.75 , 215.625, 217.5  , 219.375, 221.25 , 223.125,
           225.   , 226.875, 228.75 , 230.625, 232.5  , 234.375, 236.25 , 238.125,
           240.   , 241.875, 243.75 , 245.625, 247.5  , 249.375, 251.25 , 253.125,
           255.   , 256.875, 258.75 , 260.625, 262.5  , 264.375, 266.25 , 268.125,
           270.   , 271.875, 273.75 , 275.625, 277.5  , 279.375, 281.25 , 283.125,
           285.   , 286.875, 288.75 , 290.625, 292.5  , 294.375, 296.25 , 298.125,
           300.   , 301.875, 303.75 , 305.625, 307.5  , 309.375, 311.25 , 313.125,
           315.   , 316.875, 318.75 , 320.625, 322.5  , 324.375, 326.25 , 328.125,
           330.   , 331.875, 333.75 , 335.625, 337.5  , 339.375, 341.25 , 343.125,
           345.   , 346.875, 348.75 , 350.625, 352.5  , 354.375, 356.25 , 358.125],
          dtype=float32)

  • forecast_reference_time
    (realization, time)
    datetime64[ns]
    ...

    standard_name :

    forecast_reference_time

    [78 values with dtype=datetime64[ns]]

• Data variables: (3)
  • surface_temperature
    (realization, time, latitude, longitude)
    float32
    ...

    standard_name :

    surface_temperature

    units :

    K

    um_stash_source :

    m01s00i024

    cell_methods :

    time: mean (interval: 1 hour)

    grid_mapping :

    latitude_longitude

    [2171520 values with dtype=float32]

  • latitude_longitude
    ()
    int32
    ...

    grid_mapping_name :

    latitude_longitude

    longitude_of_prime_meridian :

    0.0

    earth_radius :

    6371229.0

    [1 values with dtype=int32]

  • time_bnds
    (time, bnds)
    datetime64[ns]
    ...

    [12 values with dtype=datetime64[ns]]

• Attributes: (3)

  source :

  Data from Met Office Unified Model

  um_version :

  7.6

  Conventions :

  CF-1.5

As we saw in the Gridded Datasets I Tutorial we can easily wrap this xarray data structure as a HoloViews Dataset:

dataset = gv.Dataset(xr_ensembles, vdims='surface_temperature')
dataset

:Dataset   [realization,time,latitude,longitude]   (surface_temperature)

From the repr we can immediately see the list of key dimensions (time, realization, longitude and latitude) and the value dimension of the cube (surface_temperature). However, unlike most other HoloViews Elements, the Dataset Element does not display itself visually. This is because it can be n-dimensional and therefore does not have any specific straightforward visual representation on a 2D display. To view the cube, we first have to transform it into individually visualizable chunks. Before doing so, we will want to supply a custom value formatter for the time dimension so that it is readable by humans:

hv.Dimension.type_formatters[np.datetime64] = '%Y-%m-%d'

Conversions

A HoloViews Dataset is a wrapper around a complex multi-dimensional datastructure which allows the user to convert their data into individually visualizable views, each usually of lower dimensionality. This is done by grouping the data by some dimension and then casting it to a specific Element type, which visualizes itself.

The dataset.to interface makes this especially easy. To use it, you supply the Element type that you want to view the data as and the key dimensions of that view and it will figure out the rest. Depending on the type of Element, you can specify one or more dimensions to be displayed. GeoViews provides a set of GeoElements that allow you to display geographic data on a cartographic projection, but you can use any Elements from HoloViews for non-geographic plots.

Recall that the cube we are working with has 4 coordinate dimensions (or key dimensions as they are known in HoloViews) – time, realization, longitude, and latitude. For our purposes, a geographic plot is defined as a plot that has longitude along the x axis and latitude along the y axis. To declare a two-dimensional geographic plot, we therefore simply request a gv.Image plot with longitude and latitude as key dimensions. There is one value dimension (vdim) available, surface_temperature, and any remaining key dimensions (time and realization in this case) are assigned to a HoloMap data structure by default. The resulting HoloMap gives you widgets automatically to allow you to explore the data across the two “remaining” key dimensions (those not mapped onto axes of the image):

geo_dims = ['longitude', 'latitude']
(dataset.to(gv.Image, geo_dims) * gf.coastline)[::5, ::5]

In this way we can visualize the geographic data in a number of ways, currently either as an Image (as above) or as LineContours, FilledContours, or Points:

layout = hv.Layout([dataset.to(el, geo_dims)[::10, ::5] * gf.coastline
                    for el in [gv.FilledContours, gv.LineContours, gv.Points]]).cols(1)

layout.opts(opts.Points(color='surface_temperature', cmap='jet'))

Note that by default the conversion interface will automatically expand all the individual Elements, which can take some time if the data is very large. Instead we can also request the objects to be expanded dynamically using the dynamic keyword:

dataset.to(gv.Image, geo_dims, dynamic=True) * gf.coastline

Using dynamic mode means that the data for each frame is only extracted when you’re actually viewing that part of the data, which can have huge benefits in terms of speed and memory consumption. However, it relies on having a running Python process to render and serve each image, and so it cannot be used when generating static HTML output such as for the GeoViews web site.

Irregularly sampled data

Often gridded datasets are not regularly sampled, instead providing irregularly sampled multi-dimensional coordinates. Such datasets can be easily visualized using the QuadMesh element.

xrds = xr.tutorial.open_dataset('rasm').load()
qmesh = gv.Dataset(xrds.Tair).to(gv.QuadMesh, ['xc', 'yc'], dynamic=True).redim.range(Tair=(-30, 30))
qmesh.opts(colorbar=True, cmap='RdBu_r', projection=ccrs.Robinson()) * gf.coastline

Non-geographic views

So far we have focused entirely on geographic views of the data, plotting the data on a projection. However the conversion interface is completely general, allowing us to slice and dice the data in any way we like. For these views we will switch to the bokeh plotting extension:

hv.output(backend='bokeh')

The simplest example of this capability is simply a view showing the temperature over time for each realization, longitude, and latitude coordinate:

curves = dataset.to(hv.Curve, 'time', dynamic=True).overlay('realization')

curves.opts(
    opts.Curve(xrotation=25, width=600, height=400, framewise=True),
    opts.NdOverlay(legend_position='right', toolbar='right'))

Note that the longitude slider will have no effect, if latitude is -90 or +90, since there is only one data point for the North or South poles (regardless of the declared longitude). Here the .overlay gives a different curve for each realization; without it all realization values would be pooled together.

We can also make non-geographic 2D plots, for instance as a HeatMap over time and realization, at a specified longitude and latitude:

dataset.to(hv.HeatMap, ['realization', 'time'], dynamic=True).opts(width=600, colorbar=True, tools=['hover'])

---------------------------------------------------------------------------
UFuncTypeError                            Traceback (most recent call last)
File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/IPython/core/formatters.py:1036, in MimeBundleFormatter.__call__(self, obj, include, exclude)
   1033     method = get_real_method(obj, self.print_method)
   1035     if method is not None:
-> 1036         return method(include=include, exclude=exclude)
   1037     return None
   1038 else:

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/core/dimension.py:1381, in Dimensioned._repr_mimebundle_(self, include, exclude)
   1374 def _repr_mimebundle_(self, include=None, exclude=None):
   1375     """Resolves the class hierarchy for the class rendering the
   1376     object using any display hooks registered on Store.display
   1377     hooks.  The output of all registered display_hooks is then
   1378     combined and returned.
   1379 
   1380     """
-> 1381     return Store.render(self)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/core/options.py:1433, in Store.render(cls, obj)
   1431 data, metadata = {}, {}
   1432 for hook in hooks:
-> 1433     ret = hook(obj)
   1434     if ret is None:
   1435         continue

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/ipython/display_hooks.py:340, in pprint_display(obj)
    338 if not ip.display_formatter.formatters['text/plain'].pprint:
    339     return None
--> 340 return display(obj, raw_output=True)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/ipython/display_hooks.py:314, in display(obj, raw_output, **kwargs)
    312 elif isinstance(obj, (HoloMap, DynamicMap)):
    313     with option_state(obj):
--> 314         output = map_display(obj)
    315 elif isinstance(obj, Plot):
    316     output = render(obj)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/ipython/display_hooks.py:205, in display_hook.<locals>.wrapped(element)
    203 try:
    204     max_frames = OutputSettings.options['max_frames']
--> 205     mimebundle = fn(element, max_frames=max_frames)
    206     if mimebundle is None:
    207         return {}, {}

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/ipython/display_hooks.py:260, in map_display(vmap, max_frames)
    257     max_frame_warning(max_frames)
    258     return None
--> 260 return render(vmap)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/ipython/display_hooks.py:76, in render(obj, **kwargs)
     73 if renderer.fig == 'pdf':
     74     renderer = renderer.instance(fig='png')
---> 76 return renderer.components(obj, **kwargs)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/renderer.py:396, in Renderer.components(self, obj, fmt, comm, **kwargs)
    394 embed = (not (dynamic or streams or self.widget_mode == 'live') or config.embed)
    395 if embed or config.comms == 'default':
--> 396     return self._render_panel(plot, embed, comm)
    397 return self._render_ipywidget(plot)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/renderer.py:403, in Renderer._render_panel(self, plot, embed, comm)
    401 doc = Document()
    402 with config.set(embed=embed):
--> 403     model = plot.layout._render_model(doc, comm)
    404 if embed:
    405     return render_model(model, comm)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/panel/viewable.py:768, in Viewable._render_model(self, doc, comm)
    766 if comm is None:
    767     comm = state._comm_manager.get_server_comm()
--> 768 model = self.get_root(doc, comm)
    770 if self._design and self._design.theme.bokeh_theme:
    771     doc.theme = self._design.theme.bokeh_theme

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/panel/layout/base.py:329, in Panel.get_root(self, doc, comm, preprocess)
    325 def get_root(
    326     self, doc: Document | None = None, comm: Comm | None = None,
    327     preprocess: bool = True
    328 ) -> Model:
--> 329     root = super().get_root(doc, comm, preprocess)
    330     # ALERT: Find a better way to handle this
    331     if hasattr(root, 'styles') and 'overflow-x' in root.styles:

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/panel/viewable.py:698, in Renderable.get_root(self, doc, comm, preprocess)
    696 wrapper = self._design._wrapper(self)
    697 if wrapper is self:
--> 698     root = self._get_model(doc, comm=comm)
    699     if preprocess:
    700         self._preprocess(root)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/panel/layout/base.py:313, in Panel._get_model(self, doc, root, parent, comm)
    311 root = root or model
    312 self._models[root.ref['id']] = (model, parent)
--> 313 objects, _ = self._get_objects(model, [], doc, root, comm)
    314 props = self._get_properties(doc)
    315 props[self._property_mapping['objects']] = objects

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/panel/layout/base.py:295, in Panel._get_objects(self, model, old_objects, doc, root, comm)
    293 else:
    294     try:
--> 295         child = pane._get_model(doc, root, model, comm)
    296     except RerenderError as e:
    297         if e.layout is not None and e.layout is not self:

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/panel/pane/holoviews.py:487, in HoloViews._get_model(self, doc, root, parent, comm)
    485     plot = self.object
    486 else:
--> 487     plot = self._render(doc, comm, root)
    489 plot.pane = self
    490 backend = plot.renderer.backend

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/panel/pane/holoviews.py:581, in HoloViews._render(self, doc, comm, root)
    578     if comm:
    579         kwargs['comm'] = comm
--> 581 return renderer.get_plot(self.object, **kwargs)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/bokeh/renderer.py:70, in BokehRenderer.get_plot(self_or_cls, obj, doc, renderer, **kwargs)
     63 @bothmethod
     64 def get_plot(self_or_cls, obj, doc=None, renderer=None, **kwargs):
     65     """Given a HoloViews Viewable return a corresponding plot instance.
     66     Allows supplying a document attach the plot to, useful when
     67     combining the bokeh model with another plot.
     68 
     69     """
---> 70     plot = super().get_plot(obj, doc, renderer, **kwargs)
     71     if plot.document is None:
     72         plot.document = Document() if self_or_cls.notebook_context else curdoc()

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/renderer.py:239, in Renderer.get_plot(self_or_cls, obj, doc, renderer, comm, **kwargs)
    236     defaults = [kd.default for kd in plot.dimensions]
    237     init_key = tuple(v if d is None else d for v, d in
    238                      zip(plot.keys[0], defaults, strict=None))
--> 239     plot.update(init_key)
    240 else:
    241     plot = obj

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/plot.py:958, in DimensionedPlot.update(self, key)
    956 def update(self, key):
    957     if len(self) == 1 and key in (0, self.keys[0]) and not self.drawn:
--> 958         return self.initialize_plot()
    959     item = self.__getitem__(key)
    960     self.traverse(lambda x: setattr(x, '_updated', True))

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/bokeh/element.py:2208, in ElementPlot.initialize_plot(self, ranges, plot, plots, source)
   2206 if self.autorange:
   2207     self._setup_autorange()
-> 2208 self._init_glyphs(plot, element, ranges, source)
   2209 if not self.overlaid:
   2210     self._update_plot(key, plot, style_element)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/bokeh/heatmap.py:268, in HeatMapPlot._init_glyphs(self, plot, element, ranges, source)
    267 def _init_glyphs(self, plot, element, ranges, source):
--> 268     super()._init_glyphs(plot, element, ranges, source)
    269     self._draw_markers(plot, element, self.xmarks, axis='x')
    270     self._draw_markers(plot, element, self.ymarks, axis='y')

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/bokeh/element.py:2108, in ElementPlot._init_glyphs(self, plot, element, ranges, source)
   2106 else:
   2107     style = self.style[self.cyclic_index]
-> 2108     data, mapping, style = self.get_data(element, ranges, style)
   2109     current_id = element._plot_id
   2111 with abbreviated_exception():

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/holoviews/plotting/bokeh/heatmap.py:165, in HeatMapPlot.get_data(self, element, ranges, style)
    163         ys = element.dimension_values(y, expanded=False)
    164         ydiff = np.diff(ys)
--> 165         y_index = ranges[y]['data'][0] if (not ydiff.size or np.allclose(ydiff, ydiff[0])) else None
    167 self._is_contiguous_gridded = is_gridded and x_index is not None and y_index is not None
    168 if self.is_contiguous_gridded:

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/numpy/_core/numeric.py:2365, in allclose(a, b, rtol, atol, equal_nan)
   2279 @array_function_dispatch(_allclose_dispatcher)
   2280 def allclose(a, b, rtol=1.e-5, atol=1.e-8, equal_nan=False):
   2281     """
   2282     Returns True if two arrays are element-wise equal within a tolerance.
   2283 
   (...)   2363 
   2364     """
-> 2365     res = all(isclose(a, b, rtol=rtol, atol=atol, equal_nan=equal_nan))
   2366     return builtins.bool(res)

File ~/work/geoviews/geoviews/.pixi/envs/docs/lib/python3.11/site-packages/numpy/_core/numeric.py:2496, in isclose(a, b, rtol, atol, equal_nan)
   2492         print(err_msg)
   2494 with errstate(invalid='ignore'):
-> 2496     result = (less_equal(abs(x - y), atol + rtol * abs(y))
   2497               & isfinite(y)
   2498               | (x == y))
   2499     if equal_nan:
   2500         result |= isnan(x) & isnan(y)

UFuncTypeError: ufunc 'add' cannot use operands with types dtype('float64') and dtype('<m8[ns]')

:DynamicMap   [latitude,longitude]
   :HeatMap   [realization,time]   (surface_temperature)

Lower-dimensional views

So far all the conversions shown have incorporated each of the available coordinate dimensions explicitly. However, often times we want to see the spread of values along one or more dimensions, pooling all the other dimensions together. A simple example of this is a box plot where we might want to see the spread of surface_temperature on each day, pooled across all latitude and longitude coordinates. To pool across particular dimensions, we can explicitly declare the “map” dimensions, which are the key dimensions of the HoloMap container rather than those of the Elements contained in the HoloMap. By explicitly declaring no dimensions to groupby, we can tell the conversion interface to pool across all dimensions except the particular key dimension(s) supplied, in this case the 'time' (plot A) and 'realization' (plot B):

hv.output(backend='matplotlib')

hv.Layout([dataset.to(hv.Violin, d, groupby=[], datatype=['dataframe']).opts(xrotation=25)
           for d in ['time', 'realization']])

Reducing the data

So far all the examples we have seen have displayed all the data in some way or another. Another way to explore a dataset is to explicitly reduce the dimensionality or select subregions of a dataset. There are two main ways to do this—either we explicitly select a subset of the data, or we collapse a dimension using an aggregation function, e.g. by computing a mean along a particular dimension.

Selecting slices

Using the select method we can easily select ranges of coordinates in the dataset. Unfortunately, the select method does not currently know that latitude and longitude are cyclic, so instead we have to select regions at both ends of the prime meridian (0$^\circ$ longitude) and overlay them. In this way we can stitch together multiple cubes or xarrays or simply view specific subregions:

northern = dataset.select(latitude=slice(25, 75))
(northern.select(longitude=slice(260, 305)).to(gv.Image, geo_dims) *
 northern.select(longitude=slice(330, 362)).to(gv.Image, geo_dims) *
 gf.coastline)[::5, ::5]

Selecting a particular coordinate

To examine one particular coordinate, we can select it, cast the data to Curves, reindex the data to drop the now-constant latitude and longitude dimensions, and overlay the remaining ‘realization’ dimension:

hv.output(backend='bokeh')

curves = dataset.select(latitude=0, longitude=0).to(hv.Curve, ['time']).reindex().overlay()

curves.opts(width=600, height=400, legend_position='right', toolbar='above')

As you can see, with GeoViews and HoloViews it is very simple to select precisely which aspects of complex, multidimensional datasets that you want to focus on.

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