Add a 'seed' parameter to the netEmbedding function#178
Open
ycl6 wants to merge 2 commits intojinworks:mainfrom
Open
Add a 'seed' parameter to the netEmbedding function#178ycl6 wants to merge 2 commits intojinworks:mainfrom
ycl6 wants to merge 2 commits intojinworks:mainfrom
Conversation
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
A PR with similar changes has been submitted before to sqjin/CellChat#679 to help with the reproducibility of UMAP plots when running the
netEmbeddingfunction.The PR adds a
seedparamter to thenetEmbeddingfunction to allow generating reproducible UMAPs, as requested in sqjin/CellChat#155, sqjin/CellChat#196 and sqjin/CellChat#435. This works on bothumap-learnanduwotmethods. The default setting isseed = 42. One can useseed = NULLto reset and produce a different set of embeddings.