docs(gallery): derive the gallery from the notebook sources#752

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63 changes: 8 additions & 55 deletions docs/gallery.md
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Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down
2 changes: 1 addition & 1 deletion docs/notebooks
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Submodule notebooks updated from 05b0f5 to 8d786c
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63 changes: 8 additions & 55 deletions
docs/gallery.md

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Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down

2 changes: 1 addition & 1 deletion
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63 changes: 8 additions & 55 deletions
docs/gallery.md

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Original file line numberDiff line numberDiff line change
Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down

2 changes: 1 addition & 1 deletion
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63 changes: 8 additions & 55 deletions
docs/gallery.md

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Original file line numberDiff line numberDiff line change
Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down

2 changes: 1 addition & 1 deletion
docs/notebooks

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Submodule notebooks
updated

from 05b0f5 to 8d786c

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63 changes: 8 additions & 55 deletions
docs/gallery.md

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Original file line numberDiff line numberDiff line change
Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down

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63 changes: 8 additions & 55 deletions
docs/gallery.md

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Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down

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63 changes: 8 additions & 55 deletions
docs/gallery.md

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Original file line numberDiff line numberDiff line change
Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down

2 changes: 1 addition & 1 deletion
docs/notebooks

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Submodule notebooks
updated

from 05b0f5 to 8d786c

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63 changes: 8 additions & 55 deletions
docs/gallery.md

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Open in desktop

Original file line numberDiff line numberDiff line change
Expand Up@@ -10,69 +10,22 @@ against the latest `spatialdata-plot` release.

## Tutorials

Entry-point material for learning the API on synthetic data.
Learn the API on synthetic data. Start with *Getting started*.

::::{grid} 1 2 2 2
:gutter: 3

:::{grid-item-card} Getting started
:link: notebooks/tutorials/getting_started
:link-type: doc
:img-top: _static/gallery/getting_started.png

The fluent `.pl` API, layering, and styling on the in-memory `blobs`
dataset. Ideal first read.
:::

:::{grid-item-card} Colour and palettes
:link: notebooks/tutorials/color_and_palette
:link-type: doc
:img-top: _static/gallery/color_and_palette.png

How `color=` resolves, the v0.3.0 `groups` behaviour, and building
perceptually well-spaced or colourblind-safe palettes with
`make_palette` and `make_palette_from_data`.
:::

:::{grid-item-card} Speeding up rendering
:link: notebooks/tutorials/performance
:link-type: doc
:img-top: _static/gallery/performance.png

Keep rendering fast on large data: automatic rasterization and scale
selection for images, and the `datashader` backend for large collections
of shapes and points.
:::{include} notebooks/tutorials/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

::::

## Examples

Worked examples on real datasets you'd actually analyse.

::::{grid} 1 2 2 2
:gutter: 3
Apply the API to real datasets you'd actually analyse.

:::{grid-item-card} Visium mouse brain
:link: notebooks/examples/visium_mouse_brain
:link-type: doc
:img-top: _static/gallery/visium_mouse_brain.png

Render H&E tissue, overlay spots, color by gene expression and by cluster,
and finish with a publication-style figure.
:::{include} notebooks/examples/index.md
:start-after: <!-- gallery-cards-start -->
:end-before: <!-- gallery-cards-end -->
:::

:::{grid-item-card} Interactive region annotation
:link: notebooks/examples/interactive_annotate
:link-type: doc
:img-top: _static/gallery/interactive_annotate.png

Draw regions of interest directly on a `spatialdata-plot` canvas with
`sdata.pl.annotate(...)` and persist them as a `ShapesModel` element.
:::

::::

```{toctree}
:hidden:
:maxdepth: 2
Expand Down

2 changes: 1 addition & 1 deletion
docs/notebooks

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Submodule notebooks
updated

from 05b0f5 to 8d786c

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