Search is not available for this dataset
repo stringlengths 2 152 ⌀ | file stringlengths 15 239 | code stringlengths 0 58.4M | file_length int64 0 58.4M | avg_line_length float64 0 1.81M | max_line_length int64 0 12.7M | extension_type stringclasses 364
values |
|---|---|---|---|---|---|---|
abess | abess-master/docs/Tutorial/4-computation-tips/plot_large_sample.py | """
Large-Sample Data
=================
"""
# %%
# Introduction
# ^^^^^^^^^^^^^^^^^^^^^^^
#
# .. image:: ../../Tutorial/figure/large-sample.png
#
# A large sample size leads to a large range of possible support sizes which adds to the computational burdon.
# The computational tip here is to use the golden-section sea... | 3,940 | 33.570175 | 149 | py |
abess | abess-master/docs/Tutorial/4-computation-tips/plot_sparse_inputs.py | """
Sparse Inputs
=============
We sometimes meet with problems where the :math:`N × p` input matrix :math:`X` is extremely sparse, i.e.,
many entries in :math:`X` have zero values. A notable example comes from document classification: aiming to assign classes to a document,
making it easier to manage for publishers an... | 2,632 | 32.75641 | 159 | py |
abess | abess-master/docs/Tutorial/4-computation-tips/plot_specific_models.py | """
Specific Models
===============
"""
##########################################
# Introduction
# ^^^^^^^^^^^^
# From the algorithm preseneted in “`ABESS algorithm: details <https://abess.readthedocs.io/en/latest/auto_gallery/1-glm/plot_a2_abess_algorithm_details.html>`__”,
# one of the bottleneck in algorithm is th... | 7,337 | 48.918367 | 445 | py |
abess | abess-master/docs/Tutorial/5-scikit-learn-connection/plot_1_scikit_learn.py | """
Work with scikit-learn
======================
"""
# %%
# ``abess`` is very easy to work with the famous package ``scikit-learn``, and here is an example.
# We going to illustrate the integration of the ``abess`` with ``scikit-learn``’s pre-processing and model selection modules to
# build a non-linear model for di... | 5,954 | 32.268156 | 155 | py |
abess | abess-master/docs/Tutorial/5-scikit-learn-connection/plot_2_geomstats.py | """
Work with geomstats
===================
"""
# %%
# The package `geomstats` is used for computations and statistics on nonlinear manifolds,
# such as Hypersphere,Hyperbolic Space, Symmetric-Positive-Definite (SPD) Matrices Space and Skew-Symmetric Matrices Space.
# `abess` also works well with the package `geomst... | 9,511 | 43.037037 | 157 | py |
abess | abess-master/docs/Tutorial/5-scikit-learn-connection/plot_3_double_machine_learning.py | """
================================
Work with DoubleML
================================
Double machine learning [1]_ offer a debiased way for estimating low-dimensional parameter of interest in the presence of
high-dimensional nuisance. Many machine learning methods can be used to estimate the nuisance parameters, suc... | 9,137 | 46.103093 | 190 | py |
abess | abess-master/docs/Tutorial/5-scikit-learn-connection/plot_4_pyts.py | """
==============
Work with pyts
==============
``pyts`` is a Python package dedicated to time series classification. It aims to make time series classification
easily accessible by providing preprocessing and utility tools, and implementations of several time series
classification algorithms. In this example, we wi... | 7,074 | 37.873626 | 123 | py |
abess | abess-master/docs/Tutorial/5-scikit-learn-connection/plot_5_dowhy.py | """
================================
Work with DoWhy
================================
``DoWhy`` is a Python library for causal inference that supports explicit modeling and testing of causal assumptions. In
this section, we will use ``abess`` to cope with high-dimensional mediation analysis problem, which is a popular ... | 15,683 | 50.762376 | 320 | py |
abess | abess-master/docs/Tutorial/5-scikit-learn-connection/plot_6_imbalanced_learn.py | """
===========================
Work with imbalanced-learn
===========================
``Imbalanced-learn`` is an open source, MIT-licensed library relying on scikit-learn
and provides tools when dealing with classification with imbalanced classes. In this tutorial,
we will show how to combine ``abess.linear.Logistic... | 4,974 | 32.166667 | 110 | py |
abess | abess-master/docs/real-data/README.md | ## Introduction
We compare `abess` and other well-known algorithms under linear regression and logistic regression models on several real-world datasets. The comparison is conducted on both Python and R environments. In what follow, we depict step-by-step instructions for properly using scripts in subdirectories.
Not... | 1,876 | 30.283333 | 299 | md |
abess | abess-master/docs/real-data/cancer/chin.py | # %%
import numpy as np
import pandas as pd
from time import time
from abess.linear import LogisticRegression
from sklearn.metrics import roc_auc_score
from sklearn.linear_model import LogisticRegressionCV
from celer import LogisticRegression as celerLogisticRegressionCV
from sklearn.model_selection import train_test_s... | 4,440 | 30.496454 | 132 | py |
abess | abess-master/docs/real-data/musk/musk.py | # %%
import numpy as np
import pandas as pd
from time import time
from abess.linear import LogisticRegression
from sklearn.metrics import roc_auc_score
from sklearn.linear_model import LogisticRegressionCV
from celer import LogisticRegression as celerLogisticRegressionCV
from sklearn.model_selection import train_test_... | 5,047 | 33.108108 | 132 | py |
abess | abess-master/docs/real-data/superconductivity/superconduct.py | # %%
import numpy as np
from time import time
from abess.linear import LinearRegression
from sklearn.metrics import mean_squared_error
from sklearn.linear_model import LassoCV, OrthogonalMatchingPursuitCV
from sklearn.preprocessing import PolynomialFeatures, StandardScaler
from celer import LassoCV as celerLassoCV
from... | 4,311 | 30.940741 | 88 | py |
abess | abess-master/docs/simulation/README.md | ## Introduction
We compare `abess` and other well-known algorithms under linear regression and logistic regression model.
The comparison is conducted on both Python and R environments.
## Prerequisite
### Python (version 3.9.1):
- abess (0.4.5)
- scikit-learn (1.0.2)
- numpy
### R (version 3.6.3)
- abess (0.4.5)... | 1,773 | 29.586207 | 216 | md |
abess | abess-master/docs/simulation/Python/plot_important_search.py | from time import time
import numpy as np
from sklearn.metrics import roc_auc_score
import matplotlib.pyplot as plt
from abess.linear import LogisticRegression
from abess.datasets import make_glm_data
np.random.seed(0)
n = 500
p = 2000
k = 20
rho = 0.1
M = 50
search_path = [32, 64, 128, 256, 512, 1024, 2048]
met_save... | 1,874 | 24.337838 | 77 | py |
abess | abess-master/docs/simulation/Python/plot_results_figure.py | import os
import sys
import numpy as np
import matplotlib.pyplot as plt
import matplotlib.patches as mpatches
# %% run test
os.chdir(os.path.dirname(os.path.abspath(__file__)))
files = [
'Lm0.1_res.npy',
'Lm0.7_res.npy',
'Logistic0.1_res.npy',
'Logistic0.7_res.npy',
'Lm0.1_data.npy',
'Lm0.7_dat... | 4,966 | 32.113333 | 80 | py |
abess | abess-master/docs/simulation/Python/run_benchmark_linear.py | import sys
import warnings
from time import time
import numpy as np
from sklearn.metrics import matthews_corrcoef
from sklearn.linear_model import LassoCV
from sklearn.linear_model import OrthogonalMatchingPursuitCV
# from spams import fistaFlat
# from sklearn.model_selection import GridSearchCV
# from glmnet import El... | 5,137 | 25.900524 | 73 | py |
abess | abess-master/docs/simulation/Python/run_benchmark_logistic.py | import sys
from time import time
import numpy as np
from sklearn.metrics import matthews_corrcoef, roc_auc_score
from sklearn.linear_model import LogisticRegressionCV
# from glmnet import LogitNet
# import statsmodels.api as sm
from abess.linear import LogisticRegression
from abess.datasets import make_glm_data
def m... | 3,621 | 25.82963 | 75 | py |
abess | abess-master/include/Spectra/DavidsonSymEigsSolver.h | // Copyright (C) 2020 Netherlands eScience Center <f.zapata@esciencecenter.nl>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DAVIDSON_SYM_EIGS_S... | 3,169 | 33.835165 | 111 | h |
abess | abess-master/include/Spectra/GenEigsBase.h | // Copyright (C) 2018-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_GEN_EIGS_BASE_H
#define SPECTRA_GEN_EI... | 18,186 | 33.121951 | 105 | h |
abess | abess-master/include/Spectra/GenEigsComplexShiftSolver.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_GEN_EIGS_COMPLEX_SHIFT_SOLVER_H
#defin... | 6,755 | 41.225 | 120 | h |
abess | abess-master/include/Spectra/GenEigsRealShiftSolver.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_GEN_EIGS_REAL_SHIFT_SOLVER_H
#define S... | 3,518 | 39.918605 | 98 | h |
abess | abess-master/include/Spectra/GenEigsSolver.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_GEN_EIGS_SOLVER_H
#define SPECTRA_GEN_... | 5,233 | 33.893333 | 96 | h |
abess | abess-master/include/Spectra/JDSymEigsBase.h | // Copyright (C) 2020 Netherlands eScience Center <J.Wehner@esciencecenter.nl>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_JD_SYM_EIGS_BASE_H
... | 6,303 | 33.26087 | 110 | h |
abess | abess-master/include/Spectra/SymEigsBase.h | // Copyright (C) 2018-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_EIGS_BASE_H
#define SPECTRA_SYM_EI... | 15,129 | 32.325991 | 127 | h |
abess | abess-master/include/Spectra/SymEigsShiftSolver.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_EIGS_SHIFT_SOLVER_H
#define SPECTR... | 7,762 | 37.621891 | 98 | h |
abess | abess-master/include/Spectra/SymEigsSolver.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_EIGS_SOLVER_H
#define SPECTRA_SYM_... | 6,053 | 35.690909 | 96 | h |
abess | abess-master/include/Spectra/SymGEigsShiftSolver.h | // Copyright (C) 2020-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_GEIGS_SHIFT_SOLVER_H
#define SPECT... | 21,455 | 45.241379 | 109 | h |
abess | abess-master/include/Spectra/SymGEigsSolver.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_GEIGS_SOLVER_H
#define SPECTRA_SYM... | 13,190 | 44.329897 | 131 | h |
abess | abess-master/include/Spectra/LinAlg/Arnoldi.h | // Copyright (C) 2018-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_ARNOLDI_H
#define SPECTRA_ARNOLDI_H
#... | 10,914 | 33.541139 | 100 | h |
abess | abess-master/include/Spectra/LinAlg/BKLDLT.h | // Copyright (C) 2019-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_BK_LDLT_H
#define SPECTRA_BK_LDLT_H
#... | 17,496 | 31.522305 | 140 | h |
abess | abess-master/include/Spectra/LinAlg/DoubleShiftQR.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DOUBLE_SHIFT_QR_H
#define SPECTRA_DOUB... | 14,768 | 32.489796 | 111 | h |
abess | abess-master/include/Spectra/LinAlg/Lanczos.h | // Copyright (C) 2018-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_LANCZOS_H
#define SPECTRA_LANCZOS_H
#... | 6,282 | 35.52907 | 115 | h |
abess | abess-master/include/Spectra/LinAlg/Orthogonalization.h | // Copyright (C) 2020 Netherlands eScience Center <f.zapata@esciencecenter.nl>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_ORTHOGONALIZATION_H... | 5,705 | 39.183099 | 107 | h |
abess | abess-master/include/Spectra/LinAlg/RitzPairs.h | // Copyright (C) 2020 Netherlands eScience Center <n.renauld@esciencecenter.nl>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_RITZ_PAIRS_H
#defi... | 4,472 | 33.145038 | 102 | h |
abess | abess-master/include/Spectra/LinAlg/SearchSpace.h | // Copyright (C) 2020 Netherlands eScience Center <n.renauld@esciencecenter.nl>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SEARCH_SPACE_H
#de... | 3,388 | 33.938144 | 97 | h |
abess | abess-master/include/Spectra/LinAlg/TridiagEigen.h | // The code was adapted from Eigen/src/Eigenvaleus/SelfAdjointEigenSolver.h
//
// Copyright (C) 2008-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2010 Jitse Niesen <jitse@maths.leeds.ac.uk>
// Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the term... | 7,776 | 32.666667 | 98 | h |
abess | abess-master/include/Spectra/LinAlg/UpperHessenbergEigen.h | // The code was adapted from Eigen/src/Eigenvaleus/EigenSolver.h
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2010,2012 Jitse Niesen <jitse@maths.leeds.ac.uk>
// Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mo... | 12,450 | 38.526984 | 174 | h |
abess | abess-master/include/Spectra/LinAlg/UpperHessenbergQR.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_UPPER_HESSENBERG_QR_H
#define SPECTRA_... | 28,001 | 34.580686 | 106 | h |
abess | abess-master/include/Spectra/LinAlg/UpperHessenbergSchur.h | // The code was adapted from Eigen/src/Eigenvaleus/RealSchur.h
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2010,2012 Jitse Niesen <jitse@maths.leeds.ac.uk>
// Copyright (C) 2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
/... | 13,184 | 35.123288 | 127 | h |
abess | abess-master/include/Spectra/MatOp/DenseCholesky.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DENSE_CHOLESKY_H
#define SPECTRA_DENSE... | 4,101 | 31.555556 | 129 | h |
abess | abess-master/include/Spectra/MatOp/DenseGenComplexShiftSolve.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DENSE_GEN_COMPLEX_SHIFT_SOLVE_H
#defin... | 4,034 | 32.907563 | 141 | h |
abess | abess-master/include/Spectra/MatOp/DenseGenMatProd.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DENSE_GEN_MAT_PROD_H
#define SPECTRA_D... | 3,352 | 28.672566 | 131 | h |
abess | abess-master/include/Spectra/MatOp/DenseGenRealShiftSolve.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DENSE_GEN_REAL_SHIFT_SOLVE_H
#define S... | 3,358 | 30.990476 | 138 | h |
abess | abess-master/include/Spectra/MatOp/DenseSymMatProd.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DENSE_SYM_MAT_PROD_H
#define SPECTRA_D... | 3,452 | 30.972222 | 131 | h |
abess | abess-master/include/Spectra/MatOp/DenseSymShiftSolve.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_DENSE_SYM_SHIFT_SOLVE_H
#define SPECTR... | 3,643 | 31.828829 | 134 | h |
abess | abess-master/include/Spectra/MatOp/SparseCholesky.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SPARSE_CHOLESKY_H
#define SPECTRA_SPAR... | 4,334 | 32.604651 | 130 | h |
abess | abess-master/include/Spectra/MatOp/SparseGenComplexShiftSolve.h | // Copyright (C) 2020-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SPARSE_GEN_COMPLEX_SHIFT_SOLVE_H
#defi... | 4,345 | 33.768 | 142 | h |
abess | abess-master/include/Spectra/MatOp/SparseGenMatProd.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SPARSE_GEN_MAT_PROD_H
#define SPECTRA_... | 3,470 | 31.138889 | 132 | h |
abess | abess-master/include/Spectra/MatOp/SparseGenRealShiftSolve.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SPARSE_GEN_REAL_SHIFT_SOLVE_H
#define ... | 3,706 | 32.396396 | 139 | h |
abess | abess-master/include/Spectra/MatOp/SparseRegularInverse.h | // Copyright (C) 2017-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SPARSE_REGULAR_INVERSE_H
#define SPECT... | 4,681 | 33.426471 | 136 | h |
abess | abess-master/include/Spectra/MatOp/SparseSymMatProd.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SPARSE_SYM_MAT_PROD_H
#define SPECTRA_... | 3,695 | 32.908257 | 132 | h |
abess | abess-master/include/Spectra/MatOp/SparseSymShiftSolve.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SPARSE_SYM_SHIFT_SOLVE_H
#define SPECT... | 3,989 | 33.695652 | 135 | h |
abess | abess-master/include/Spectra/MatOp/SymShiftInvert.h | // Copyright (C) 2020-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_SHIFT_INVERT_H
#define SPECTRA_SYM... | 10,177 | 40.373984 | 131 | h |
abess | abess-master/include/Spectra/MatOp/internal/ArnoldiOp.h | // Copyright (C) 2018-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_ARNOLDI_OP_H
#define SPECTRA_ARNOLDI_O... | 3,901 | 23.540881 | 100 | h |
abess | abess-master/include/Spectra/MatOp/internal/SymGEigsBucklingOp.h | // Copyright (C) 2020-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_GEIGS_BUCKLING_OP_H
#define SPECTR... | 2,671 | 26.833333 | 79 | h |
abess | abess-master/include/Spectra/MatOp/internal/SymGEigsCayleyOp.h | // Copyright (C) 2020-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_GEIGS_CAYLEY_OP_H
#define SPECTRA_... | 3,163 | 28.849057 | 86 | h |
abess | abess-master/include/Spectra/MatOp/internal/SymGEigsCholeskyOp.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_GEIGS_CHOLESKY_OP_H
#define SPECTR... | 2,548 | 27.965909 | 80 | h |
abess | abess-master/include/Spectra/MatOp/internal/SymGEigsRegInvOp.h | // Copyright (C) 2017-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_GEIGS_REG_INV_OP_H
#define SPECTRA... | 2,330 | 26.423529 | 79 | h |
abess | abess-master/include/Spectra/MatOp/internal/SymGEigsShiftInvertOp.h | // Copyright (C) 2020-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SYM_GEIGS_SHIFT_INVERT_OP_H
#define SP... | 2,702 | 27.15625 | 86 | h |
abess | abess-master/include/Spectra/Util/CompInfo.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_COMP_INFO_H
#define SPECTRA_COMP_INFO_... | 1,213 | 31.810811 | 85 | h |
abess | abess-master/include/Spectra/Util/GEigsMode.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_GEIGS_MODE_H
#define SPECTRA_GEIGS_MOD... | 959 | 32.103448 | 88 | h |
abess | abess-master/include/Spectra/Util/SelectionRule.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SELECTION_RULE_H
#define SPECTRA_SELEC... | 8,908 | 28.598007 | 127 | h |
abess | abess-master/include/Spectra/Util/SimpleRandom.h | // Copyright (C) 2016-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_SIMPLE_RANDOM_H
#define SPECTRA_SIMPLE... | 2,841 | 27.42 | 70 | h |
abess | abess-master/include/Spectra/Util/TypeTraits.h | // Copyright (C) 2018-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_TYPE_TRAITS_H
#define SPECTRA_TYPE_TRA... | 2,365 | 22.66 | 70 | h |
abess | abess-master/include/Spectra/Util/Version.h | // Copyright (C) 2020-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_VERSION_H
#define SPECTRA_VERSION_H
#... | 556 | 31.764706 | 109 | h |
abess | abess-master/include/Spectra/contrib/LOBPCGSolver.h | // Written by Anna Araslanova
// Modified by Yixuan Qiu
// License: MIT
#ifndef SPECTRA_LOBPCG_SOLVER_H
#define SPECTRA_LOBPCG_SOLVER_H
#include <functional>
#include <map>
#include <Eigen/Core>
#include <Eigen/SparseCore>
#include <Eigen/Eigenvalues>
#include <Eigen/SVD>
#include <Eigen/SparseCholesky>
#include ".... | 18,661 | 32.807971 | 222 | h |
abess | abess-master/include/Spectra/contrib/PartialSVDSolver.h | // Copyright (C) 2018-2021 Yixuan Qiu <yixuan.qiu@cos.name>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obtain one at https://mozilla.org/MPL/2.0/.
#ifndef SPECTRA_PARTIAL_SVD_SOLVER_H
#define SPECTRA_P... | 5,921 | 26.933962 | 145 | h |
abess | abess-master/python/setup.py | import os
import re
import sys
import distutils
import subprocess
# import platform
from setuptools import Extension, setup, find_packages
from setuptools.command.build_ext import build_ext
CURRENT_DIR = os.path.abspath(os.path.dirname(__file__))
PLAT_TO_CMAKE = {
"win32": "Win32",
"win-amd64": "x64",
"w... | 7,986 | 34.816143 | 79 | py |
abess | abess-master/python/abess/__init__.py | #!/usr/bin/env python
# -*- coding: utf-8 -*-
# @Time :
# @Author :
# @Site :
# @File : __init__.py
__version__ = "0.4.7rc1"
__author__ = ("Jin Zhu, Kangkang Jiang, "
"Junhao Huang, Yanhang Zhang, "
"Yanhang Zhang, Shiyun Lin, "
"Junxian Zhu, Xueqin Wang")
from .lin... | 1,222 | 22.980392 | 65 | py |
abess | abess-master/python/abess/bess_base.py | import numbers
import warnings
import numpy as np
import pandas as pd
from scipy.sparse import coo_matrix, csr_matrix
from sklearn.base import BaseEstimator
from sklearn.utils.validation import check_X_y
from sklearn.exceptions import DataConversionWarning
from .pybind_cabess import pywrap_GLM
from .utilities import ca... | 24,190 | 37.7056 | 79 | py |
abess | abess-master/python/abess/datasets.py | import numpy as np
def sample(p, k):
full = np.arange(p)
select = sorted(np.random.choice(full, k, replace=False))
return select
def sparse_beta_generator(p, Nonzero, k, M):
Tbeta = np.zeros([p, M])
beta_value = beta_generator(k, M)
Tbeta[Nonzero, :] = beta_value
return Tbeta
def beta_... | 16,958 | 34.703158 | 78 | py |
abess | abess-master/python/abess/decomposition.py | import numbers
import numpy as np
from scipy.sparse import coo_matrix, issparse
from sklearn.utils.validation import check_array
from .pybind_cabess import pywrap_PCA, pywrap_RPCA
from .bess_base import bess_base
from .utilities import new_data_check
class SparsePCA(bess_base):
r"""
Adaptive Best-Subset Selec... | 27,964 | 34.715198 | 79 | py |
abess | abess-master/python/abess/functions.py | # This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# This program is distributed in the hope that it will be useful,
# bu... | 26,182 | 33.67947 | 83 | py |
abess | abess-master/python/abess/linear.py | import warnings
import numpy as np
from sklearn.metrics import r2_score, accuracy_score, ndcg_score
from .bess_base import bess_base
from .utilities import fix_docs, new_data_check
from .functions import (BreslowEstimator, concordance_index_censored)
# from .nonparametric import _compute_counts
try:
from sklearn.me... | 54,782 | 36.166214 | 79 | py |
abess | abess-master/python/abess/pca.py | import warnings
from .decomposition import SparsePCA, RobustPCA
# This is the old API for `abess.decomposition`
# and will be removed in version 0.6.0.
class abessPCA(SparsePCA):
warning_msg = ("Class ``abess.pca.abessPCA`` has been renamed to "
"``abess.decomposition.SparsePCA``. "
... | 2,313 | 35.730159 | 73 | py |
abess | abess-master/python/abess/utilities.py | import numpy as np
from sklearn.utils.validation import check_X_y, check_array, check_is_fitted
def fix_docs(cls):
"""
This function is to inherit the docstring from base class
and avoid unnecessary duplications on description.
"""
title_index = cls.__doc__.find("Parameters\n ----------")
m... | 3,296 | 29.813084 | 76 | py |
abess | abess-master/python/include/Eigen/src/Cholesky/LDLT.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2011 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2009 Keir Mierle <mierle@gmail.com>
// Copyright (C) 2009 Benoit Jacob <jacob.benoit.1@gmail.com>
// Copyright (C) 2011 Timothy E. Holy <tim.... | 24,254 | 35.201493 | 166 | h |
abess | abess-master/python/include/Eigen/src/Cholesky/LLT.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can ob... | 17,834 | 32.336449 | 138 | h |
abess | abess-master/python/include/Eigen/src/Cholesky/LLT_LAPACKE.h | /*
Copyright (c) 2011, Intel Corporation. All rights reserved.
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the ... | 3,974 | 38.75 | 113 | h |
abess | abess-master/python/include/Eigen/src/CholmodSupport/CholmodSupport.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You c... | 22,307 | 33.85625 | 161 | h |
abess | abess-master/python/include/Eigen/src/Core/Array.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2009 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can ob... | 12,218 | 35.804217 | 145 | h |
abess | abess-master/python/include/Eigen/src/Core/ArrayBase.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2009 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can ob... | 8,179 | 35.035242 | 134 | h |
abess | abess-master/python/include/Eigen/src/Core/ArrayWrapper.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2009-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You c... | 6,775 | 31.266667 | 97 | h |
abess | abess-master/python/include/Eigen/src/Core/Assign.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2007 Michael Olbrich <michael.olbrich@gmx.net>
// Copyright (C) 2006-2010 Benoit Jacob <jacob.benoit.1@gmail.com>
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is s... | 2,720 | 28.901099 | 145 | h |
abess | abess-master/python/include/Eigen/src/Core/AssignEvaluator.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2011 Benoit Jacob <jacob.benoit.1@gmail.com>
// Copyright (C) 2011-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2011-2012 Jitse Niesen <jitse@maths.leeds.ac.uk>
//
// This Source Code Form is... | 38,120 | 39.727564 | 171 | h |
abess | abess-master/python/include/Eigen/src/Core/Assign_MKL.h | /*
Copyright (c) 2011, Intel Corporation. All rights reserved.
Copyright (C) 2015 Gael Guennebaud <gael.guennebaud@inria.fr>
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:
* Redistributions of source code must retain... | 12,221 | 68.050847 | 158 | h |
abess | abess-master/python/include/Eigen/src/Core/BandMatrix.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2009 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can ob... | 13,910 | 38.29661 | 145 | h |
abess | abess-master/python/include/Eigen/src/Core/Block.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2006-2010 Benoit Jacob <jacob.benoit.1@gmail.com>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If ... | 18,064 | 38.878587 | 161 | h |
abess | abess-master/python/include/Eigen/src/Core/BooleanRedux.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can ob... | 4,249 | 24.757576 | 113 | h |
abess | abess-master/python/include/Eigen/src/Core/CommaInitializer.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2006-2008 Benoit Jacob <jacob.benoit.1@gmail.com>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If ... | 5,689 | 34.341615 | 122 | h |
abess | abess-master/python/include/Eigen/src/Core/ConditionEstimator.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2016 Rasmus Munk Larsen (rmlarsen@google.com)
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You can obta... | 6,970 | 38.607955 | 109 | h |
abess | abess-master/python/include/Eigen/src/Core/CoreEvaluators.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2011 Benoit Jacob <jacob.benoit.1@gmail.com>
// Copyright (C) 2011-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2011-2012 Jitse Niesen <jitse@maths.leeds.ac.uk>
//
// This Source Code Form is... | 61,293 | 35.659091 | 188 | h |
abess | abess-master/python/include/Eigen/src/Core/CoreIterators.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You c... | 4,525 | 34.359375 | 122 | h |
abess | abess-master/python/include/Eigen/src/Core/CwiseBinaryOp.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2006-2008 Benoit Jacob <jacob.benoit.1@gmail.com>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0... | 7,593 | 40.048649 | 179 | h |
abess | abess-master/python/include/Eigen/src/Core/CwiseNullaryOp.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You c... | 31,424 | 35.245675 | 194 | h |
abess | abess-master/python/include/Eigen/src/Core/CwiseTernaryOp.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2006-2008 Benoit Jacob <jacob.benoit.1@gmail.com>
// Copyright (C) 2016 Eugene Brevdo <ebrevdo@gmail.com>
//
// This Source Code Form is subj... | 8,256 | 40.70202 | 83 | h |
abess | abess-master/python/include/Eigen/src/Core/CwiseUnaryOp.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2008-2014 Gael Guennebaud <gael.guennebaud@inria.fr>
// Copyright (C) 2006-2008 Benoit Jacob <jacob.benoit.1@gmail.com>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0... | 3,877 | 36.288462 | 145 | h |
abess | abess-master/python/include/Eigen/src/Core/CwiseUnaryView.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2009-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0. If a copy of the MPL was not distributed
// with this file, You c... | 5,282 | 39.953488 | 158 | h |
abess | abess-master/python/include/Eigen/src/Core/DenseBase.h | // This file is part of Eigen, a lightweight C++ template library
// for linear algebra.
//
// Copyright (C) 2007-2010 Benoit Jacob <jacob.benoit.1@gmail.com>
// Copyright (C) 2008-2010 Gael Guennebaud <gael.guennebaud@inria.fr>
//
// This Source Code Form is subject to the terms of the Mozilla
// Public License v. 2.0... | 27,420 | 43.805556 | 160 | h |