simple_pca.hpp File Reference

Perform a simple PCA on a gene-by-cell matrix. More...

#include <vector>
#include <type_traits>
#include <algorithm>
#include "tatami/tatami.hpp"
#include "tatami_stats/tatami_stats.hpp"
#include "irlba/irlba.hpp"
#include "irlba/parallel.hpp"
#include "Eigen/Dense"
#include "sanisizer/sanisizer.hpp"
#include "utils.hpp"

Go to the source code of this file.

Classes
struct	scran_pca::SimplePcaOptions
	Options for simple_pca(). More...
struct	scran_pca::SimplePcaResults< EigenMatrix_, EigenVector_ >
	Results of simple_pca(). More...

Namespaces
namespace	scran_pca
	Principal component analysis on single-cell data.

Functions
template<typename Value_ , typename Index_ , typename EigenMatrix_ , class EigenVector_ >
void	scran_pca::simple_pca (const tatami::Matrix< Value_, Index_ > &mat, const SimplePcaOptions &options, SimplePcaResults< EigenMatrix_, EigenVector_ > &output)
template<typename EigenMatrix_ = Eigen::MatrixXd, class EigenVector_ = Eigen::VectorXd, typename Value_ , typename Index_ >
SimplePcaResults< EigenMatrix_, EigenVector_ >	scran_pca::simple_pca (const tatami::Matrix< Value_, Index_ > &mat, const SimplePcaOptions &options)

Detailed Description

Perform a simple PCA on a gene-by-cell matrix.