blocked_pca.hpp File Reference

Perform PCA on residuals after regressing out a blocking factor. More...

#include <vector>
#include <cmath>
#include <algorithm>
#include <type_traits>
#include <cstddef>
#include <functional>
#include "tatami/tatami.hpp"
#include "irlba/irlba.hpp"
#include "irlba/parallel.hpp"
#include "Eigen/Dense"
#include "scran_blocks/scran_blocks.hpp"
#include "sanisizer/sanisizer.hpp"
#include "utils.hpp"

Go to the source code of this file.

Classes
struct	scran_pca::BlockedPcaOptions
	Options for blocked_pca(). More...
struct	scran_pca::BlockedPcaResults< EigenMatrix_, EigenVector_ >
	Results of blocked_pca(). More...

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

Functions
template<typename Value_ , typename Index_ , typename Block_ , typename EigenMatrix_ , class EigenVector_ >
void	scran_pca::blocked_pca (const tatami::Matrix< Value_, Index_ > &mat, const Block_ *block, const BlockedPcaOptions &options, BlockedPcaResults< EigenMatrix_, EigenVector_ > &output)
template<typename EigenMatrix_ = Eigen::MatrixXd, class EigenVector_ = Eigen::VectorXd, typename Value_ , typename Index_ , typename Block_ >
BlockedPcaResults< EigenMatrix_, EigenVector_ >	scran_pca::blocked_pca (const tatami::Matrix< Value_, Index_ > &mat, const Block_ *block, const BlockedPcaOptions &options)

Detailed Description

Perform PCA on residuals after regressing out a blocking factor.