build_snn_graph.hpp File Reference

Build a shared nearest-neighbor graph on the cells. More...

#include <vector>
#include <algorithm>
#include <memory>
#include <cstddef>
#include "knncolle/knncolle.hpp"

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Classes
struct	scran_graph_cluster::BuildSnnGraphOptions
	Options for SNN graph construction. More...
struct	scran_graph_cluster::BuildSnnGraphResults< Node_, Weight_ >
	Results of SNN graph construction. More...

Namespaces
namespace	scran_graph_cluster
	Graph-based clustering of single-cell data.

Typedefs
typedef int	scran_graph_cluster::DefaultNode
typedef double	scran_graph_cluster::DefaultWeight

Enumerations
enum class	scran_graph_cluster::SnnWeightScheme : char { RANKED , NUMBER , JACCARD }

Functions
template<typename Node_ = DefaultNode, typename Weight_ = DefaultWeight, typename Index_ , class GetNeighbors_ , class GetIndex_ >
void	scran_graph_cluster::build_snn_graph (Index_ num_cells, GetNeighbors_ get_neighbors, GetIndex_ get_index, const BuildSnnGraphOptions &options, BuildSnnGraphResults< Node_, Weight_ > &output)
template<typename Node_ = DefaultNode, typename Weight_ = DefaultWeight, typename Index_ , typename Distance_ >
BuildSnnGraphResults< Node_, Weight_ >	scran_graph_cluster::build_snn_graph (const knncolle::NeighborList< Index_, Distance_ > &neighbors, const BuildSnnGraphOptions &options)
template<typename Node_ = int, typename Weight_ = double, typename Index_ >
BuildSnnGraphResults< Node_, Weight_ >	scran_graph_cluster::build_snn_graph (const std::vector< std::vector< Index_ > > &neighbors, const BuildSnnGraphOptions &options)
template<typename Node_ = DefaultNode, typename Weight_ = DefaultWeight, typename Index_ , typename Input_ , typename Distance_ >
BuildSnnGraphResults< Node_, Weight_ >	scran_graph_cluster::build_snn_graph (const knncolle::Prebuilt< Index_, Input_, Distance_ > &prebuilt, const BuildSnnGraphOptions &options)
template<typename Node_ = DefaultNode, typename Weight_ = DefaultWeight, typename Index_ , typename Input_ , typename Distance_ , class Matrix_ = knncolle::Matrix<Index_, Input_>>
BuildSnnGraphResults< Node_, Weight_ >	scran_graph_cluster::build_snn_graph (std::size_t num_dims, Index_ num_cells, const Input_ *data, const knncolle::Builder< Index_, Input_, Distance_, Matrix_ > &knn_method, const BuildSnnGraphOptions &options)

Detailed Description

Build a shared nearest-neighbor graph on the cells.