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Added visualizations for variables ordered by observations. E.g. marker genes ordered by cluster #175

merged 5 commits into from Jun 20, 2018


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fidelram commented Jun 14, 2018

This PR adds extra functionality to pl.violin adding the option produce stacked violin plots for each key passed. The new optional boolean argument stripplot was added to add/remove the stripplot on top of the violin plots. An example image is:


Similarly, I added pl.heatmap that plots variables ordered by an observation as follows:


An example notebook using these visualizations is here

fidelram added some commits Jun 12, 2018

added option to combine groupby and multi_panel when using violin plo…
…ts. This is useful to quickly get an overview of the expression of a list of genes over multiple clusters.
add pl.heatmap to plot expression values, limited to a number of var_…
…names (eg. marker genes) ordered by a given observation (eg clusters, batch etc)

@fidelram fidelram referenced this pull request Jun 18, 2018


cluster heatmap #178


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falexwolf commented Jun 20, 2018

Wow! Again simply awesome! 😄

PS: Sorry for the late response, I was on holidays.

@falexwolf falexwolf merged commit e3c45ff into theislab:master Jun 20, 2018

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@fidelram fidelram deleted the fidelram:multi_violin branch Jun 20, 2018


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jorvis commented Jun 21, 2018

Very nice!!

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