Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Add exercises #26

Merged
merged 2 commits into from
Sep 8, 2024
Merged

Add exercises #26

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
9037837
don't print a gigantic table
andrewGhazi Sep 8, 2024
f74bed0
formatting tweaks
andrewGhazi Sep 8, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
4 changes: 2 additions & 2 deletions episodes/cell_type_annotation.Rmd
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -466,14 +466,14 @@ overlaps in their marker sets. In the absence of prior annotation, a
more general diagnostic check is to compare the assigned labels to
cluster identities, under the expectation that most cells of a single
cluster would have the same label (or, if multiple labels are present,
they should at least represent closely related cell states).
they should at least represent closely related cell states). We only print out the top-left corner of the table here, but you should try looking at the whole thing:

```{r anno-vs-cluster}
new.labels <- colnames(results)[max.col(results)]

tab <- table(new.labels, sce$celltype.mapped)

tab
tab[1:4,1:4]
```

As a diagnostic measure, we examine the distribution of AUCs across
Expand Down
Loading
Loading