AdjScoreClustersCODEX.internal: Use the Adjacency Score to evaluate colocaliztion of all...
In CamaraLab/STvEA: Spatially-resolved Transcriptomics via Epitope Anchoring
View source: R/feature_scores.R
AdjScoreClustersCODEX.internal R Documentation
Use the Adjacency Score to evaluate colocaliztion of all pairs
of CODEX clusters in CODEX spatial dimensions.
Calls Adjacency Score with c=0 to use hypergeometric null distribution
speed up for mutually exclusive binary features.
Takes matrices and data frames instead of STvEA.data class
Description
Use the Adjacency Score to evaluate colocaliztion of all pairs
of CODEX clusters in CODEX spatial dimensions.
Calls Adjacency Score with c=0 to use hypergeometric null distribution
speed up for mutually exclusive binary features.
Takes matrices and data frames instead of STvEA.data class
Usage
AdjScoreClustersCODEX.internal(adj_matrix, codex_clusters, num_cores = 1)
Arguments
adj_matrix
a (preferrably sparse) binary matrix of
adjacency between the cells in the CODEX spatial coordinates
codex_clusters
a vector of the cluster ID for each CODEX cell
num_cores
integer specifying the number of cores to be used
in the computation. By default only one core is used.
On Windows, this must be set to 1.
CamaraLab/STvEA documentation built on April 2, 2024, 6:07 a.m.
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View source: R/feature_scores.R
| AdjScoreClustersCODEX.internal | R Documentation |
Use the Adjacency Score to evaluate colocaliztion of all pairs of CODEX clusters in CODEX spatial dimensions. Calls Adjacency Score with c=0 to use hypergeometric null distribution speed up for mutually exclusive binary features. Takes matrices and data frames instead of STvEA.data class
Description
Use the Adjacency Score to evaluate colocaliztion of all pairs of CODEX clusters in CODEX spatial dimensions. Calls Adjacency Score with c=0 to use hypergeometric null distribution speed up for mutually exclusive binary features. Takes matrices and data frames instead of STvEA.data class
Usage
AdjScoreClustersCODEX.internal(adj_matrix, codex_clusters, num_cores = 1)
Arguments
adj_matrix |
a (preferrably sparse) binary matrix of adjacency between the cells in the CODEX spatial coordinates |
codex_clusters |
a vector of the cluster ID for each CODEX cell |
num_cores |
integer specifying the number of cores to be used in the computation. By default only one core is used. On Windows, this must be set to 1. |
R Package Documentation
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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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