diff --git a/documentation/reference/MODULES.md b/documentation/reference/MODULES.md
deleted file mode 100644
index 48de098..0000000
--- a/documentation/reference/MODULES.md
+++ /dev/null
@@ -1,8 +0,0 @@
-# Pylsr Modules
-
-> Auto-generated documentation modules index.
-
-Full list of [Pylsr](README.md#pylsr-index) project modules.
-
-- [Pylsr Index](README.md#pylsr-index)
-- [Pylsr](pylsr/index.md#pylsr)
diff --git a/documentation/reference/README.md b/documentation/reference/README.md
index 48de098..fa4f79d 100644
--- a/documentation/reference/README.md
+++ b/documentation/reference/README.md
@@ -1,8 +1,7 @@
-# Pylsr Modules
+# Pylsr Index
 
-> Auto-generated documentation modules index.
+> Auto-generated documentation index.
 
-Full list of [Pylsr](README.md#pylsr-index) project modules.
+A full list of `Pylsr` project modules.
 
-- [Pylsr Index](README.md#pylsr-index)
 - [Pylsr](pylsr/index.md#pylsr)
diff --git a/documentation/reference/pylsr/index.md b/documentation/reference/pylsr/index.md
index 9102641..2e8d96c 100644
--- a/documentation/reference/pylsr/index.md
+++ b/documentation/reference/pylsr/index.md
@@ -1,73 +1,80 @@
 # Pylsr
 
+[Pylsr Index](../README.md#pylsr-index) /
+Pylsr
+
 > Auto-generated documentation for [pylsr](../../../pylsr/__init__.py) module.
 
-Read an LSR image.
-
-- [Pylsr](../README.md#pylsr-index) / [Modules](../MODULES.md#pylsr-modules) / Pylsr
-    - [LSRImage](#lsrimage)
-        - [LSRImage().flatten](#lsrimageflatten)
-    - [LSRImageData](#lsrimagedata)
-        - [LSRImageData().scaledImage](#lsrimagedatascaledimage)
-    - [LSRLayer](#lsrlayer)
-        - [LSRLayer().flatten](#lsrlayerflatten)
-        - [LSRLayer().offsets](#lsrlayeroffsets)
-    - [flattenAll](#flattenall)
-    - [flattenTwoLayers](#flattentwolayers)
-    - [rasterImageOffset](#rasterimageoffset)
-    - [read](#read)
-    - [renderImageOffset](#renderimageoffset)
-    - [write](#write)
+- [Pylsr](#pylsr)
+  - [LSRImage](#lsrimage)
+    - [LSRImage().flatten](#lsrimage()flatten)
+  - [LSRImageData](#lsrimagedata)
+    - [LSRImageData().scaledImage](#lsrimagedata()scaledimage)
+  - [LSRLayer](#lsrlayer)
+    - [LSRLayer().flatten](#lsrlayer()flatten)
+    - [LSRLayer().offsets](#lsrlayer()offsets)
+  - [flattenAll](#flattenall)
+  - [flattenTwoLayers](#flattentwolayers)
+  - [rasterImageOffset](#rasterimageoffset)
+  - [read](#read)
+  - [renderImageOffset](#renderimageoffset)
+  - [write](#write)
 
 ## LSRImage
 
-[[find in source code]](../../../pylsr/__init__.py#L15)
+[Show source in __init__.py:15](../../../pylsr/__init__.py#L15)
+
+LSRImage contains data on the overall size, the layers and the name of the lsr image.
+
+#### Signature
 
 ```python
-class LSRImage():
+class LSRImage:
     def __init__(
-        size: tuple[int, int],
-        name: str,
-        layers: list[LSRLayer] | None = None,
+        self, size: tuple[int, int], name: str, layers: list[LSRLayer] | None = None
     ):
+        ...
 ```
 
-LSRImage contains data on the overall size, the layers and the name of the lsr image.
-
 ### LSRImage().flatten
 
-[[find in source code]](../../../pylsr/__init__.py#L23)
+[Show source in __init__.py:23](../../../pylsr/__init__.py#L23)
+
+Flatten all of the layers.
+
+#### Signature
 
 ```python
-def flatten() -> Image.Image:
+def flatten(self) -> Image.Image:
+    ...
 ```
 
-Flatten all of the layers.
+
 
 ## LSRImageData
 
-[[find in source code]](../../../pylsr/__init__.py#L58)
+[Show source in __init__.py:58](../../../pylsr/__init__.py#L58)
+
+LSRImageData stores the PIL Image along with the name, scale of the image and the idiom.
+
+#### Signature
 
 ```python
-class LSRImageData():
+class LSRImageData:
     def __init__(
+        self,
         image: Image.Image,
         name: str,
-        scale: str = '1x',
-        idiom: str = 'universal',
+        scale: str = "1x",
+        idiom: str = "universal",
         offsets: tuple[int, int] = (0, 0),
     ):
+        ...
 ```
 
-LSRImageData stores the PIL Image along with the name, scale of the image and the idiom.
-
 ### LSRImageData().scaledImage
 
-[[find in source code]](../../../pylsr/__init__.py#L75)
-
-```python
-def scaledImage():
-```
+[Show source in __init__.py:75](../../../pylsr/__init__.py#L75)
 
 Get the scaled image.
 
@@ -75,62 +82,76 @@ Get the scaled image.
 
 - `Image.Image` - The image to scale
 
+#### Signature
+
+```python
+def scaledImage(self):
+    ...
+```
+
+
+
 ## LSRLayer
 
-[[find in source code]](../../../pylsr/__init__.py#L31)
+[Show source in __init__.py:31](../../../pylsr/__init__.py#L31)
+
+LSRLayer contains data on the layer such as the list of images, the name,
+the size and the centre offset.
+
+#### Signature
 
 ```python
-class LSRLayer():
+class LSRLayer:
     def __init__(
+        self,
         images: list[LSRImageData],
         name: str,
         size: tuple[int, int],
         center: tuple[int, int],
     ):
+        ...
 ```
 
-LSRLayer contains data on the layer such as the list of images, the name,
-the size and the centre offset.
-
 #### See also
 
 - [LSRImageData](#lsrimagedata)
 
 ### LSRLayer().flatten
 
-[[find in source code]](../../../pylsr/__init__.py#L53)
-
-```python
-def flatten() -> Image.Image:
-```
+[Show source in __init__.py:53](../../../pylsr/__init__.py#L53)
 
 Flatten all of the layers.
 
-### LSRLayer().offsets
-
-[[find in source code]](../../../pylsr/__init__.py#L44)
+#### Signature
 
 ```python
-def offsets() -> tuple[int, int]:
+def flatten(self) -> Image.Image:
+    ...
 ```
 
+### LSRLayer().offsets
+
+[Show source in __init__.py:44](../../../pylsr/__init__.py#L44)
+
 Calculate the x, y offset for the top left corner.
 
 #### Returns
 
 - `tuple[int,` *int]* - tuple for x, y offset
 
-## flattenAll
-
-[[find in source code]](../../../pylsr/__init__.py#L219)
+#### Signature
 
 ```python
-def flattenAll(
-    layers: list[LSRImageData],
-    imageDimensions: tuple[int, int],
-) -> Image.Image:
+def offsets(self) -> tuple[int, int]:
+    ...
 ```
 
+
+
+## flattenAll
+
+[Show source in __init__.py:219](../../../pylsr/__init__.py#L219)
+
 Flatten a list of layers and groups.
 
 #### Arguments
@@ -143,21 +164,24 @@ been flattened. Defaults to None.
 
 - `Image.Image` - Flattened image
 
+#### Signature
+
+```python
+def flattenAll(
+    layers: list[LSRImageData], imageDimensions: tuple[int, int]
+) -> Image.Image:
+    ...
+```
+
 #### See also
 
 - [LSRImageData](#lsrimagedata)
 
-## flattenTwoLayers
 
-[[find in source code]](../../../pylsr/__init__.py#L197)
 
-```python
-def flattenTwoLayers(
-    layer: LSRImageData,
-    imageDimensions: tuple[int, int],
-    flattenedSoFar: Image.Image | None = None,
-) -> Image.Image:
-```
+## flattenTwoLayers
+
+[Show source in __init__.py:197](../../../pylsr/__init__.py#L197)
 
 Flatten two layers of an image.
 
@@ -172,36 +196,44 @@ flattened. Defaults to None.
 
 - `Image.Image` - Flattened image
 
+#### Signature
+
+```python
+def flattenTwoLayers(
+    layer: LSRImageData,
+    imageDimensions: tuple[int, int],
+    flattenedSoFar: Image.Image | None = None,
+) -> Image.Image:
+    ...
+```
+
 #### See also
 
 - [LSRImageData](#lsrimagedata)
 
+
+
 ## rasterImageOffset
 
-[[find in source code]](../../../pylsr/__init__.py#L238)
+[Show source in __init__.py:238](../../../pylsr/__init__.py#L238)
+
+Render an image with offset to a given size. (deprecated, use renderImageOffset)
+
+#### Signature
 
 ```python
-@deprecated(
-    deprecated_in='2022',
-    removed_in='2023',
-    details='Use renderImageOffset',
-)
+@deprecated(deprecated_in="2022", removed_in="2023", details="Use renderImageOffset")
 def rasterImageOffset(
-    image: Image.Image,
-    size: tuple[int, int],
-    offsets: tuple[int, int] = (0, 0),
+    image: Image.Image, size: tuple[int, int], offsets: tuple[int, int] = (0, 0)
 ) -> Image.Image:
+    ...
 ```
 
-Render an image with offset to a given size. (deprecated, use renderImageOffset)
 
-## read
 
-[[find in source code]](../../../pylsr/__init__.py#L85)
+## read
 
-```python
-def read(filename: str) -> LSRImage:
-```
+[Show source in __init__.py:85](../../../pylsr/__init__.py#L85)
 
 Read an lsr file.
 
@@ -211,33 +243,41 @@ Read an lsr file.
 
 #### Returns
 
-- `LSRImage` - An lsr image representation
+- [LSRImage](#lsrimage) - An lsr image representation
+
+#### Signature
+
+```python
+def read(filename: str) -> LSRImage:
+    ...
+```
 
 #### See also
 
 - [LSRImage](#lsrimage)
 
+
+
 ## renderImageOffset
 
-[[find in source code]](../../../pylsr/__init__.py#L246)
+[Show source in __init__.py:246](../../../pylsr/__init__.py#L246)
+
+Render an image with offset to a given size.
+
+#### Signature
 
 ```python
 def renderImageOffset(
-    image: Image.Image,
-    size: tuple[int, int],
-    offsets: tuple[int, int] = (0, 0),
+    image: Image.Image, size: tuple[int, int], offsets: tuple[int, int] = (0, 0)
 ) -> Image.Image:
+    ...
 ```
 
-Render an image with offset to a given size.
+
 
 ## write
 
-[[find in source code]](../../../pylsr/__init__.py#L139)
-
-```python
-def write(filename: str, lsrImage: LSRImage):
-```
+[Show source in __init__.py:139](../../../pylsr/__init__.py#L139)
 
 Write an lsr image to disk.
 
@@ -246,6 +286,15 @@ Write an lsr image to disk.
 - `filename` *str* - filename and extension
 - `lsrImage` *LSRImage* - the lsr image representation to save
 
+#### Signature
+
+```python
+def write(filename: str, lsrImage: LSRImage):
+    ...
+```
+
 #### See also
 
 - [LSRImage](#lsrimage)
+
+