Clustering at k60

## Scale for 'colour' is already present. Adding another scale for 'colour',
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Annotation

We make a first rough annotation using known markers for different celltypes.

Click to expand the Neurons marker plots 

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## Scale for 'colour' is already present. Adding another scale for 'colour',
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## Scale for 'colour' is already present. Adding another scale for 'colour',
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## Scale for 'colour' is already present. Adding another scale for 'colour',
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Click to expand the Stromal marker plots 

## Scale for 'colour' is already present. Adding another scale for 'colour',
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## Scale for 'colour' is already present. Adding another scale for 'colour',
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Click to expand the Epithelial cells 

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Click to expand the Astrocytes marker plots 

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Click to expand the Immune cells plots 

## Scale for 'colour' is already present. Adding another scale for 'colour',
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## Scale for 'colour' is already present. Adding another scale for 'colour',
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## Scale for 'colour' is already present. Adding another scale for 'colour',
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## Scale for 'colour' is already present. Adding another scale for 'colour',
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Click to expand the Oligodendroglia marker plots 

## Scale for 'colour' is already present. Adding another scale for 'colour',
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## Scale for 'colour' is already present. Adding another scale for 'colour',
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Click to expand the ependymal marker plots

Generate marker list

We compute here a pairwise differential expression between all the clusters. The results are saved in a list of dataframes, one for each cluster.

Rename the Clusters with assigned Cell Types

For this first annotation we will rename the levels from the k=40 clustering as follows 1

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