Correct lost gene expression column when loading NanoString CosMx data #7566
Conversation
This file contains 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
The LoadNanostring() function drops the first gene from the assay expression matrix. This patch corrects this and no longer drops this gene from the expression matrix.
|
Thanks for the PR! |
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Outdated suggestions cannot be applied.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.
The LoadNanostring() function drops the first gene from the assay expression matrix. This patch corrects this and no longer drops this gene from the expression matrix.
Specifically, the gene is dropped only from the "assay" slot but not from the "images" slot as show here:
Example of this issue not present after the patch in this PR:
