NN: Main nearest neighbour calculation function. Used on the...
In scmap: A tool for unsupervised projection of single cell RNA-seq data
Description
Main nearest neighbour calculation function. Used on the first reference dataset.
Returns a list of three objects:
1) the cell indices of the w nearest neighbours
2) the corresponding approx. cosine similarities
Usage
1
NN(w, k, subcentroids, subclusters, query_chunks, M, SqNorm)
Arguments
w
An integer specifying the number of nearest neighbours
k
An integer specifying the number of subcentroids for each product quantization chunk
subcentroids
A list of matrices containing the subcentroids of each chunk.
subclusters
A matrix containing the subcentroid assignments of each reference cell. See scf_index.
query_chunks
A list of matrices containing the chunks of the query dataset after it has been split
according to the product quantization method
M
An integer specifying the number of chunks
SqNorm
A numerical vector containing the Euclidean Squared Norm of each query cell.
scmap documentation built on Nov. 8, 2020, 8:07 p.m.
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Description
Main nearest neighbour calculation function. Used on the first reference dataset. Returns a list of three objects: 1) the cell indices of the w nearest neighbours 2) the corresponding approx. cosine similarities
Usage
1 | NN(w, k, subcentroids, subclusters, query_chunks, M, SqNorm)
|
Arguments
w |
An integer specifying the number of nearest neighbours |
k |
An integer specifying the number of subcentroids for each product quantization chunk |
subcentroids |
A list of matrices containing the subcentroids of each chunk. |
subclusters |
A matrix containing the subcentroid assignments of each reference cell. See scf_index. |
query_chunks |
A list of matrices containing the chunks of the query dataset after it has been split according to the product quantization method |
M |
An integer specifying the number of chunks |
SqNorm |
A numerical vector containing the Euclidean Squared Norm of each query cell. |
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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