search

SofieVG / FlowSOM

Using self-organizing maps for visualization and interpretation of cytometry data
61 stars 26 forks source link

Change default argument of `map` in `SOM` to `TRUE` #51

Closed alex-l-kong closed 1 year ago

alex-l-kong commented 2 years ago

Closes #50. This adds a map parameter to the SOM function which the user can explicitly set to FALSE, allowing MapDataToCodes to not run and saving just the SOM weights.

ngreenwald commented 2 years ago

Hey @SofieVG, @artuurC, we've been using your repo as the underlying clustering algorithm for our new method for analyzing spatial image data. We just posted our preprint this week describing the method: https://www.biorxiv.org/content/10.1101/2022.08.16.504171v1. When you have a chance, could you take a look at this PR? It would be super useful for us to allow fine-grained control over the inference portion of FlowSOM.

ngreenwald commented 1 year ago

Hey @SamGG, just wanted to follow up to see if you guys would be willing to approve this change!

SamGG commented 1 year ago

@ngreenwald I am simply an enthusiastic user.