find_doublets: simple automated doublet marking for pipelining, refactored a...
In trichelab/velocessor: The world's dumbest single-cell RNA velocity calculator and loader
Description
Usage
Arguments
Details
Value
View source: R/find_doublets.R
Description
Note: if colLabels(txis) exists, it will be used to supply cluster labels.
Note: if xgboost is installed, we use "xgb", else "weighted" for the score.
Usage
1
2
3
drop_doublets(txis, score = NULL, clust = TRUE, ...)
find_doublets(txis, score = NULL, clust = TRUE, ...)
Arguments
txis
a SingleCellExperiment, ideally with sample and cluster labels
score
scoring method ("xgb" if possible, "weighted" otherwise)
clust
use clusters? (default is TRUE; set to false if many samples)
...
more params for scDblFinder, e.g. trajectoryMode or BPPARAM
Details
1
drop_doublets drops doublets. find_doublets just marks them.
Value
1
a SingleCellExperiment with doublets marked (or dropped)
trichelab/velocessor documentation built on Jan. 5, 2022, 6:27 p.m.
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Description Usage Arguments Details Value
View source: R/find_doublets.R
Description
Note: if colLabels(txis) exists, it will be used to supply cluster labels. Note: if xgboost is installed, we use "xgb", else "weighted" for the score.
Usage
1 2 3 | drop_doublets(txis, score = NULL, clust = TRUE, ...)
find_doublets(txis, score = NULL, clust = TRUE, ...)
|
Arguments
txis |
a SingleCellExperiment, ideally with sample and cluster labels |
score |
scoring method ("xgb" if possible, "weighted" otherwise) |
clust |
use clusters? (default is TRUE; set to false if many samples) |
... |
more params for scDblFinder, e.g. |
Details
1 | drop_doublets drops doublets. find_doublets just marks them.
|
Value
1 | a SingleCellExperiment with doublets marked (or dropped)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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