List of all items

Structs

• core::base::loess::LoessRegression
• core::base::loess::LoessRes
• core::base::pert_dist_perm::PermutationTestResult
• core::mat_struct::MatSliceView
• core::mat_struct::NamedMatrix
• core::math::linear_algebra::NnlsParams
• core::math::mixed_model::RandomInterceptFit
• core::math::mixed_model::RandomInterceptParams
• core::math::mixed_model::RandomInterceptStats
• core::math::pca_missing::BpcaParams
• core::math::pca_missing::MissingPcaResults
• core::math::pca_missing::PpcaParams
• core::math::pca_svd::RandomSvdResults
• core::math::pca_svd::SvdResults
• core::math::sparse::BlockLanczosParams
• core::math::sparse::CompressedSparseData2
• core::math::sparse::LanczosParams
• core::math::sparse::LanczosResult
• core::math::sparse::RitzPairs
• core::math::sparse::ScatterPtr
• core::math::sparse::SparseAxis
• core::math::sparse::SparseColMoments
• core::math::stats::AnovaSummary
• core::math::stats::KsTestRes
• core::math::stats::ManovaResult
• core::math::stats::ManovaSummary
• core::synthetic_data::HubModularConfig
• core::synthetic_data::LoadingLogNormal
• core::synthetic_data::ModularConfig
• core::synthetic_data::NonGaussianFactorConfig
• core::synthetic_data::NonNegativeFactorConfig
• core::synthetic_data::SparsityParams
• core::synthetic_data::SyntheticRnaSeqData
• core::synthetic_data::SyntheticRnaSeqParams
• ml::clustering::hierarchical::LinkageStep
• ml::clustering::k_means::KMeansParamsWrappers
• ml::gp::landmark::LandmarkGpFit
• ml::gp::landmark::LandmarkGpParams
• prelude::CompressedSparseData2
• prelude::SparseAxis
• utils::heap_structures::RevOrderedFloat

Enums

• core::base::cors_similarity::DistanceType
• core::base::cors_similarity::TomType
• core::base::info::BinningStrategy
• core::base::loess::LoessFunc
• core::base::loess::LoessSurface
• core::base::pert_dist::PertDistance
• core::base::pert_dist_perm::PermutationPath
• core::math::rbf::RbfType
• core::math::sparse::CompressedSparseFormat
• core::math::stats::OutlierDirection
• core::math::stats::TestAlternative
• core::synthetic_data::BulkDataGenerator
• core::synthetic_data::DropoutStrategy
• errors::CoreErrors
• errors::SparseErrors
• ml::clustering::hierarchical::LinkageMethod
• ml::clustering::k_means::KMeansType
• prelude::CompressedSparseFormat
• prelude::Verbosity
• utils::simd::SimdLevel

Traits

• core::math::pca_svd::SvdResult
• core::math::sparse::SparseFromDense
• utils::simd::BixverseSimd
• utils::traits::BixverseFloat
• utils::traits::BixverseNumeric
• utils::traits::VecConvert
• utils::traits::VecFloatConvert
• utils::traits::VecIndexCast

Macros

• assert_nrows
• assert_same_dims
• assert_same_len
• assert_symmetric_mat
• prelude::assert_nrows
• prelude::assert_same_len
• prelude::assert_symmetric_mat

Functions

• core::base::cors_similarity::calc_pmi
• core::base::cors_similarity::calc_tom
• core::base::cors_similarity::column_mutual_information
• core::base::cors_similarity::column_pairwise_canberra_dist
• core::base::cors_similarity::column_pairwise_cor
• core::base::cors_similarity::column_pairwise_cos
• core::base::cors_similarity::column_pairwise_cosine_dist
• core::base::cors_similarity::column_pairwise_cov
• core::base::cors_similarity::column_pairwise_gower
• core::base::cors_similarity::column_pairwise_hamming_cat
• core::base::cors_similarity::column_pairwise_l1_norm
• core::base::cors_similarity::column_pairwise_l2_norm
• core::base::cors_similarity::cor_two_matrices
• core::base::cors_similarity::cov2cor
• core::base::cors_similarity::jaccard_sorted
• core::base::cors_similarity::parse_distance_type
• core::base::cors_similarity::parse_tom_types
• core::base::cors_similarity::row_pairwise_gower
• core::base::cors_similarity::set_similarity
• core::base::cors_similarity::two_matrices_dist
• core::base::info::bin_matrix_cols
• core::base::info::calculate_entropy
• core::base::info::calculate_joint_entropy
• core::base::info::calculate_mi
• core::base::info::parse_bin_strategy_type
• core::base::kernel_smooth::bw_nrd
• core::base::kernel_smooth::bw_sj
• core::base::kernel_smooth::ksmooth_normal
• core::base::loess::parse_loess_fun
• core::base::loess::parse_loess_surface
• core::base::pert_dist::edistance_two_matrices
• core::base::pert_dist::mean_pairwise_between
• core::base::pert_dist::mean_pairwise_within
• core::base::pert_dist::onesided_edistance
• core::base::pert_dist::pairwise_edistance
• core::base::pert_dist::parse_perturbation_distance
• core::base::pert_dist_perm::edistance_from_pairwise
• core::base::pert_dist_perm::parse_perm_path
• core::base::pert_dist_perm::permutation_test_onesided
• core::base::pert_dist_perm::permutation_test_two_groups
• core::math::distributions::chisq_sf
• core::math::distributions::f_sf
• core::math::distributions::gamma_cdf
• core::math::distributions::gamma_sf
• core::math::distributions::norm_cdf
• core::math::distributions::norm_ppf
• core::math::distributions::norm_sf
• core::math::distributions::t_cdf
• core::math::distributions::t_pval_two_sided
• core::math::distributions::t_sf
• core::math::linear_algebra::linear_regression
• core::math::linear_algebra::linear_regression_widen
• core::math::linear_algebra::nnls_gram
• core::math::linear_algebra::ols_residualise
• core::math::linear_algebra::spd_log_det
• core::math::linear_algebra::sylvester_solver
• core::math::matrix_helpers::col_means
• core::math::matrix_helpers::col_sds
• core::math::matrix_helpers::col_sums
• core::math::matrix_helpers::mirror_lower_to_upper
• core::math::matrix_helpers::normalise_matrix_col_l2
• core::math::matrix_helpers::normalise_rows_l1
• core::math::matrix_helpers::rank_matrix_col
• core::math::matrix_helpers::scale_matrix_col
• core::math::matrix_helpers::stack_rows
• core::math::matrix_helpers::subset_rows
• core::math::mixed_model::fit_random_intercept
• core::math::optimise::brent_fmin
• core::math::optimise::zeroin
• core::math::pca_missing::bpca
• core::math::pca_missing::ppca
• core::math::pca_missing::ppca_from_init
• core::math::pca_svd::compute_pc_scores
• core::math::pca_svd::dense_covariance_svd
• core::math::pca_svd::get_top_eigenvalues
• core::math::pca_svd::randomised_sparse_svd
• core::math::pca_svd::randomised_svd
• core::math::pca_svd::randomised_svd_matfree
• core::math::pca_svd::sparse_covariance_svd
• core::math::rbf::parse_rbf_types
• core::math::rbf::rbf_bump
• core::math::rbf::rbf_bump_mat
• core::math::rbf::rbf_gaussian
• core::math::rbf::rbf_gaussian_mat
• core::math::rbf::rbf_inverse_quadratic
• core::math::rbf::rbf_inverse_quadratic_mat
• core::math::rbf::rbf_iterate_epsilons
• core::math::sparse::block_lanczos_thick_restart
• core::math::sparse::compute_largest_eigenpairs_lanczos
• core::math::sparse::compute_largest_eigenpairs_lanczos_diag
• core::math::sparse::coo_to_csr
• core::math::sparse::coo_to_csr_presorted
• core::math::sparse::count_zeroes
• core::math::sparse::csr_matmul_csr
• core::math::sparse::csr_matmul_dense_block
• core::math::sparse::csr_matvec
• core::math::sparse::csr_sparse_matmul_dense
• core::math::sparse::csr_vecmat
• core::math::sparse::eliminate_zeros_csr
• core::math::sparse::frobenius_norm
• core::math::sparse::frobenius_norm_sq_f64
• core::math::sparse::normalise_csr_columns_l1
• core::math::sparse::normalise_csr_rows_l1
• core::math::sparse::parse_compressed_sparse_format
• core::math::sparse::require_csc
• core::math::sparse::require_csr
• core::math::sparse::require_matmul_operands
• core::math::sparse::sparse_add_csr
• core::math::sparse::sparse_col_means_csc
• core::math::sparse::sparse_col_moments
• core::math::sparse::sparse_col_sds_csc
• core::math::sparse::sparse_multiply_elementwise_csr
• core::math::sparse::sparse_pairwise_correlations
• core::math::sparse::sparse_scalar_multiply_csr
• core::math::sparse::sparse_subtract_csr
• core::math::sparse::sparse_svd_lanczos
• core::math::sparse::thread_chunks
• core::math::sparse::transpose_sparse
• core::math::sparse::transpose_sparse_single_layer
• core::math::sparse::undirected_edges_to_csr
• core::math::sparse::validate_square_csr
• core::math::special::digamma
• core::math::stats::calc_fdr
• core::math::stats::calculate_critval
• core::math::stats::fisher_combine
• core::math::stats::fit_gamma_mle
• core::math::stats::get_test_alternative
• core::math::stats::hedge_g_effect
• core::math::stats::hypergeom_pval
• core::math::stats::inv_logit
• core::math::stats::is_outlier
• core::math::stats::ks_test_1samp
• core::math::stats::logit
• core::math::stats::mad_outlier
• core::math::stats::one_way_anova
• core::math::stats::p_adjust_fdr
• core::math::stats::p_adjust_holm
• core::math::stats::parse_outlier_type
• core::math::stats::partial_correlation
• core::math::stats::robust_scale_binned
• core::math::stats::summary_aov
• core::math::stats::trigamma
• core::math::stats::wilcox_rank_sum_greater_approx
• core::math::stats::z_scores_to_pval
• core::math::vector_helpers::interp_linear_at
• core::math::vector_helpers::interp_log_linear_at
• core::math::vector_helpers::mad
• core::math::vector_helpers::mean_nan
• core::math::vector_helpers::median
• core::math::vector_helpers::pearson_correlation
• core::math::vector_helpers::quantile
• core::math::vector_helpers::quantile_sorted
• core::math::vector_helpers::rank_vector
• core::math::vector_helpers::standard_deviation
• core::math::vector_helpers::sum_sq_f64
• core::synthetic_data::apply_dropout
• core::synthetic_data::generate_bulk_rnaseq
• core::synthetic_data::parse_bulk_data_generator
• core::synthetic_data::parse_dropout_strategy
• ml::clustering::clustering_metrics::adjusted_rand_index
• ml::clustering::clustering_metrics::silhouette_cosine_unit
• ml::clustering::hierarchical::condensed_euclidean
• ml::clustering::hierarchical::linkage
• ml::clustering::hierarchical::parse_linkage_method
• ml::clustering::k_means::compute_data_norms
• ml::clustering::k_means::k_means_clusters
• ml::clustering::k_means::parse_k_means
• ml::clustering::k_means::parse_kmean_path
• ml::clustering::k_means::parse_kmeans_init
• ml::clustering::k_means::recompute_centroid_norms
• ml::clustering::k_means::train_centroids_minibatch
• ml::gp::kernels::fill_matern52_cross_1d
• ml::gp::kernels::fill_matern52_cross_1d_par
• ml::gp::kernels::matern52
• ml::gp::landmark::fit_landmark_gp
• prelude::parse_compressed_sparse_format
• prelude::parse_verbosity_level
• prelude::report_decile_progress
• utils::faer_parallelism
• utils::gemm::gemm
• utils::gemm::gram
• utils::matrix_utils::colbind_matrices
• utils::matrix_utils::column_slices
• utils::matrix_utils::faer_diagonal_from_vec
• utils::matrix_utils::faer_mat_to_upper_triangle
• utils::matrix_utils::flat_row_major_to_mat
• utils::matrix_utils::mat_rm_row
• utils::matrix_utils::mat_to_flat_row_major
• utils::matrix_utils::nested_vector_to_faer_mat
• utils::matrix_utils::rowbind_matrices
• utils::matrix_utils::upper_triangle_indices
• utils::matrix_utils::upper_triangle_to_sym_faer
• utils::simd::argmin_diff_simd_f32
• utils::simd::axpy_simd_f32
• utils::simd::axpy_simd_f64
• utils::simd::detect_simd_level
• utils::simd::dot_simd_f32
• utils::simd::dot_simd_f64
• utils::simd::exp_shift_sum_simd_f32
• utils::simd::hsum_avx_f64
• utils::simd::hsum_sse_f64
• utils::simd::sum_simd_f32
• utils::simd::sum_simd_f64
• utils::simd::sum_squared_dev_simd_f32
• utils::simd::sum_squared_dev_simd_f64
• utils::simd::sum_squared_dev_widen_simd_f32
• utils::simd::sum_squares_simd_f32
• utils::simd::sum_widen_simd_f32
• utils::string_vec_to_set
• utils::vec_utils::array_max
• utils::vec_utils::array_max_min
• utils::vec_utils::array_min
• utils::vec_utils::cumsum
• utils::vec_utils::flatten_vector
• utils::vec_utils::min_max_scale
• utils::vec_utils::rank_normalise
• utils::vec_utils::robust_scale
• utils::vec_utils::split_vector_randomly
• utils::vec_utils::thread_chunks
• utils::vec_utils::unique
• utils::vec_utils::zscore_normalise

Type Aliases

• core::math::stats::EffectSizeRes

Constants

• VERSION
• core::math::DEFAULT_N_POWER_ITERS_RAND_SVD
• core::math::DEFAULT_OVERSAMPLING_RAND_SVD
• core::math::MAD_SCALE
• core::math::MAX_OVERSAMPLING_SINGLE_CELL
• core::math::N_POWER_ITERS_SINGLE_CELL
• core::math::optimise::OPTIMIZE_TOL
• core::math::optimise::UNIROOT_MAXIT
• core::math::optimise::UNIROOT_TOL
• utils::simd::UNROLL