Balanced Cell Group Comparisons #19
Open
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
- Some cell types are much more abundant than others. - Some patients have many more cells than others. It also switches from a moderated t-test to the similar Cohen's d implemented in C++ for speed in scran_markers. This also avoids QR matrix decomposition and matrix inversion, which linear modelling does.
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Outdated suggestions cannot be applied.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 update addresses the cases skewed marker gene ranking of:
It also switches from a moderated t-test to the similar Cohen's d implemented in C++ for speed in scran_markers. This also avoids QR matrix decomposition and matrix inversion, which linear modelling does.
Dependency
scrapper package is not yet in Bioconductor. So, this change should not be merged before then.