[r] Make SOMAs and X layers selectable when converting to a Seurat object#571
Merged
aaronwolen merged 7 commits intomain-oldfrom Jan 23, 2023
Conversation
|
This pull request has been linked to Shortcut Story #23450: Make SOMAs and X layers selectable when converting to Seurat. |
66592ac to
23b2c6c
Compare
e65a9b3 to
e8608f6
Compare
e8608f6 to
5ab761e
Compare
11d94d9 to
6686fda
Compare
johnkerl
approved these changes
Jan 23, 2023
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
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Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be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.
This PR adds a
somasargument toSOMACollection'sto_seurat()method that allows you to select a subset ofSOMAs and, optionally,Xlayers when converting to aSeuratobject.You can pass either a vector of
SOMAnamesor a named list of character vectors, where each element corresponds to a
SOMAname and the value is a character vector ofXlayers from thatSOMAto include in the corresponding SeuratAssay: