imputeKnnSCoPE2: KNN imputation (for replication)
In UCLouvain-CBIO/2021-SCoPE2-replication: SCP Replication Vignettes
imputeKnnSCoPE2 R Documentation
KNN imputation (for replication)
Description
The function imputes missing data using the k-nearest neighbours
(KNN) approach using Euclidean distance as a similarity measure
between the cells. This function was provided as part of the
SCoPE2 publication (Specht et al. 2021).
Usage
imputeKnnSCoPE2(object, i, name = "KNNimputedAssay", k = 3)
Arguments
object
A QFeatures object
i
A numeric() or character() vector indicating from
which assays the rowData should be taken.
name
A character(1) naming the new assay name. Default is
KNNimputedAssay.
k
An integer(1) giving the number of neighbours to use.
Value
An object of class QFeatures containing an extra assay
with imputed values.
Source
The implementation of the imputation was retrieved from
https://github.com/SlavovLab/SCoPE2
References
Specht, Harrison, Edward Emmott, Aleksandra A. Petelski,
R. Gray Huffman, David H. Perlman, Marco Serra, Peter Kharchenko,
Antonius Koller, and Nikolai Slavov. 2021. “Single-Cell Proteomic
and Transcriptomic Analysis of Macrophage Heterogeneity Using
SCoPE2.” Genome Biology 22 (1): 50.
UCLouvain-CBIO/2021-SCoPE2-replication documentation built on March 29, 2025, 12:10 p.m.
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| imputeKnnSCoPE2 | R Documentation |
KNN imputation (for replication)
Description
The function imputes missing data using the k-nearest neighbours (KNN) approach using Euclidean distance as a similarity measure between the cells. This function was provided as part of the SCoPE2 publication (Specht et al. 2021).
Usage
imputeKnnSCoPE2(object, i, name = "KNNimputedAssay", k = 3)
Arguments
object |
A |
i |
A |
name |
A |
k |
An |
Value
An object of class QFeatures containing an extra assay
with imputed values.
Source
The implementation of the imputation was retrieved from https://github.com/SlavovLab/SCoPE2
References
Specht, Harrison, Edward Emmott, Aleksandra A. Petelski, R. Gray Huffman, David H. Perlman, Marco Serra, Peter Kharchenko, Antonius Koller, and Nikolai Slavov. 2021. “Single-Cell Proteomic and Transcriptomic Analysis of Macrophage Heterogeneity Using SCoPE2.” Genome Biology 22 (1): 50.
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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