harmonize_velo_txis: harness for velocity correction (currently ignorant of...
In trichelab/velocessor: The world's dumbest single-cell RNA velocity calculator and loader
Description
Usage
Arguments
Value
View source: R/harmonize_velo_txis.R
Description
Harmony is not a Bioconductor package, so the user needs to install it from
https://github.com/immunogenomics/harmony prior to using this function.
The UMAP projection will be updated to reflect harmonized coordinates unless
the user sets UMAP to FALSE when calling the function.
Usage
1
harmonize_velo_txis(txis, colname = "sample", how = "default", iter = 20, ...)
Arguments
txis
a SingleCellExperiment
colname
name of colData column with the batch variable ("sample")
how
how to respect spliced/unspliced relation, currently unused
iter
max.iter.harmony, defaults to 20 (harmony default is 10)
...
arguments to pass to RunHarmony, e.g. max.iter.harmony=20
Value
1
trichelab/velocessor documentation built on Jan. 5, 2022, 6:27 p.m.
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Description Usage Arguments Value
View source: R/harmonize_velo_txis.R
Description
Harmony is not a Bioconductor package, so the user needs to install it from https://github.com/immunogenomics/harmony prior to using this function. The UMAP projection will be updated to reflect harmonized coordinates unless the user sets UMAP to FALSE when calling the function.
Usage
1 | harmonize_velo_txis(txis, colname = "sample", how = "default", iter = 20, ...)
|
Arguments
txis |
a SingleCellExperiment |
colname |
name of colData column with the batch variable ("sample") |
how |
how to respect spliced/unspliced relation, currently unused |
iter |
max.iter.harmony, defaults to 20 (harmony default is 10) |
... |
arguments to pass to RunHarmony, e.g. max.iter.harmony=20 |
Value
1 |
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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