quick_grouped_size_factors.hpp File Reference

Quickly compute grouped size factors. More...

#include "../utils/macros.hpp"
#include <algorithm>
#include <vector>
#include <cmath>
#include <functional>
#include <memory>
#include "tatami/tatami.hpp"
#include "kmeans/Kmeans.hpp"
#include "kmeans/InitializePCAPartition.hpp"
#include "../utils/blocking.hpp"
#include "../dimensionality_reduction/SimplePca.hpp"
#include "LogNormCounts.hpp"
#include "GroupedSizeFactors.hpp"

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Classes
struct	scran::quick_grouped_size_factors::Options< Block_, SizeFactor_ >
	Options for run(). More...

Namespaces
namespace	scran
	Functions for single-cell RNA-seq analyses.
namespace	scran::quick_grouped_size_factors
	Quickly compute grouped size factors.

Functions
template<typename Value_ , typename Index_ , typename OutputFactor_ , typename Block_ , typename SizeFactor_ >
void	scran::quick_grouped_size_factors::run (const tatami::Matrix< Value_, Index_ > *mat, OutputFactor_ *output, const Options< Block_, SizeFactor_ > &opt)
template<typename Value_ , typename Index_ , typename OutputFactor_ >
void	scran::quick_grouped_size_factors::run (const tatami::Matrix< Value_, Index_ > *mat, OutputFactor_ *output)
template<typename OutputFactor_ = double, typename Value_ , typename Index_ , typename Block_ , typename SizeFactor_ >
std::vector< OutputFactor_ >	scran::quick_grouped_size_factors::run (const tatami::Matrix< Value_, Index_ > *mat, const Options< Block_, SizeFactor_ > &opt)
template<typename OutputFactor_ = double, typename Value_ , typename Index_ >
std::vector< OutputFactor_ >	scran::quick_grouped_size_factors::run (const tatami::Matrix< Value_, Index_ > *mat)

Detailed Description

Quickly compute grouped size factors.