sha256 stringlengths 64 64 | language stringclasses 28
values | size int32 1 491k | lines int32 1 23.2k | content stringlengths 1 200k |
|---|---|---|---|---|
cbeab41331841f5291622c067f962393cf29ba1355145be115ea8672eb0c1cbd | Java | 15,553 | 392 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
8319f124111cc87681847ca316af62f1d6d511ccdf82ba5e1f334d433c9b77d3 | Java | 15,554 | 424 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
3819c2f66eaf8c252ea1fdcfbabb899b205a730ec94a0418f3496620c8d34147 | Java | 15,595 | 385 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
f55c73011a11a227dcf2ea1dd423d83f54e1efd66748facd36b70cb799b26d42 | Java | 15,640 | 345 | // Worked example: how the anchored edge prior is meant to be wired into a
// random-subspace ensemble over a GWAS locus.
//
// Compiles against the same fakes as the other checks in this directory, not
// against real Tetrad. The shape of the calls is the point, not the types.
//
// The three rules this illustrates:
/... |
062ac39da8ad09dd5b1c3dee9e892adf0e7fdb803af170293fa0c6c101783017 | Java | 15,667 | 422 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
49489acfd9b0b8ac607b306ab2c00fc2e602b1349342761a5068b3e94f201cec | Java | 15,680 | 384 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
b00abda9c006bf38cf662bfacdf481eb6277828e86cb17b7a4cafbf649eb37d9 | Java | 15,684 | 416 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
1e542a3e8bcb2de8f4fe833ba02bf8eda9cd8919764352ef87b973b59310da8f | Java | 15,702 | 353 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
aec75f01c44aa4b4c42048527f2d5fffcc2dfc5f485967ab1abad2a43de679dd | Java | 15,779 | 453 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
42f6ed23fb44b1deab9ee0d78b8e47d4ebc2bf6686c8cb53dc787246c2df1fb7 | Java | 15,788 | 370 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
3aca23fa22167d8ea239f1be1469e90b7f7a570a8eeb032e203237f03aadb9c7 | Java | 15,791 | 319 | /// ////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //... |
03e673ac9c6c66d029bf04cae515f24ce4401bb336b79c4cbb27311ecc23d6f0 | Java | 15,797 | 460 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
fd4bae119512cabf500180f7fe8f43904797ff74377fd048f45d0664891f9aa4 | Java | 15,842 | 290 | package edu.cmu.tetradapp.editor;
import edu.cmu.tetrad.data.*;
import edu.cmu.tetrad.data.audit.AuditFinding;
import edu.cmu.tetrad.data.audit.DataAudit;
import edu.cmu.tetrad.data.audit.FindingCode;
import edu.cmu.tetrad.data.missing.MissingDataAudit;
import edu.cmu.tetrad.graph.Node;
import java.util.ArrayList;
im... |
c14dabfd5bcc1eed57ca131752184e61b5c0edcc14caabf828687a9071e0c34a | Java | 15,844 | 445 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
0687dc156236e6fb8529e93c7397ce04339e8971019116c9eee3106d97fc4125 | Java | 15,889 | 288 | /// ////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //... |
52066418287998ee4b96e762ec76f6d1b07dc03701bc3d80b6d21195eba1078c | Java | 15,932 | 340 | /// ////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //... |
63f7ea2c532dfbfc9b2043057e5706d4299f79ff12491f8084d2d7a90d1663cc | Java | 15,979 | 340 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
b8751acda9cf6227b788e93e7627f64f71b40f6e5b7661766f2e91d19d65d231 | Java | 16,033 | 442 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
a16733e3c0c59b835390fc98784ec8bc9746c720e1f9392e73b969feb5bc2303 | Java | 16,036 | 418 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
e94a0d033e9f8f1bec2274457e7b51f331ffe10e5795ce65b88dcaac46d1ff1a | Java | 16,040 | 404 | /*
* Copyright 2014 Numenta Inc.
*
* Copyright may exist in Contributors' modifications
* and/or contributions to the work.
*
* Use of this source code is governed by the MIT
* license that can be found in the LICENSE file or at
* https://opensource.org/licenses/MIT.
*/
package nab.detectors.htmjava;
import j... |
b7ba25e99dd45056636141c81e97a3c69cb16760652a1f40fb7b5da053268b57 | Java | 16,057 | 493 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
f9408667a0ccd794a3680c3c2c73ed6ed802b44986e55156501f5fc74ba20034 | Java | 16,071 | 382 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2026 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
87351e8830cdd1e2cc75e9d810e175fb190e24fdb7e6f930c33d0a587e21db2f | Java | 16,130 | 441 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
47489170977d202a438bd1d0e2f947ac4806abac9bcf2f32f9f7f00cbfb8df65 | Java | 16,143 | 468 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
d62f4e9053e169ad70b25023036e98dc9c75985957a796faaa95fbccaffa5a77 | Java | 16,147 | 350 | /// ////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //... |
3ed7378d0f6b6a5a9105adabf9b59f1a46decc0ef1c8aff9d1ed2a84fcef1e2f | Java | 16,193 | 444 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
6ebb26ff2ea7b5c57d1da491f40128fec81cb5d1b9de7c74aa333fd833fe6cf1 | Java | 16,195 | 489 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
aa9af2d98d92f2335dd047308c45184f24093ec79906ee16c4f70e12eab0ca26 | Java | 16,217 | 384 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
07346f7e54eb15ebb01db577423a0638f9f9a2613f0d7118bdd37328c53766fe | Java | 16,244 | 407 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
ab61d291d112a72fd793b2912731a4a63314c118dbaabb2935f5092d60735288 | Java | 16,270 | 427 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
8181d0865586dbe8241e2cbd67452370a9842bdc59bbfde801d0c216db3bc579 | Java | 16,279 | 359 | package edu.cmu.tetrad.search.score;
import edu.cmu.tetrad.data.ICovarianceMatrix;
import edu.cmu.tetrad.graph.Node;
import org.apache.commons.math3.linear.*;
import edu.cmu.tetrad.util.TMath;
import java.util.Arrays;
import java.util.List;
import java.util.Objects;
/**
* Instance-augmented SEM-BIC score for contin... |
868234fd25623d513333c09bd0c974d0cc3120cd52d772b48f9fdc85a8a01f0e | Java | 16,286 | 295 | /// ////////////////////////////////////////////////////////////////////////////
// FcitSepsets.java //
// //
// The separator search used by FCIT, extracted so that the algorithm and t... |
efc67350fc37d68ef451630825cbbfac61f62649e62fc7c540a826d7ade545aa | Java | 16,300 | 569 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
c34d9a7b6635667aa501fdcee8ccabf9f7c3428b9c20c802c3d8a43c0c081de2 | Java | 16,305 | 406 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
b8215b56118fd719279a824e482101204960f649a27c146943e2c33a2a285b6a | Java | 16,308 | 398 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
a1a4ca1c4f51b01cfb5466e2543e0484ce6136b9825059394517bec78d9e9a2e | Java | 16,355 | 388 | package edu.cmu.tetrad.bayes;
import edu.cmu.tetrad.data.DiscreteVariable;
import edu.cmu.tetrad.graph.Dag;
import edu.cmu.tetrad.graph.EdgeListGraph;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.graph.Node;
import edu.cmu.tetrad.util.TMath;
import org.junit.Test;
import static org.junit.Assert.*;
/**
*... |
876c9b3c455f064285b98c96fecd568334b3d6c0ce97ac6bd66d643fe2da98b3 | Java | 16,359 | 464 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
23a3cb426b78132164c6a165c73d994d281b6b74edef1d0cc8c7796bca4e31b6 | Java | 16,368 | 366 | package edu.cmu.tetrad.search.harness;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.graph.GraphTransforms;
import edu.cmu.tetrad.graph.Node;
import edu.cmu.tetrad.graph.RandomGraph;
import edu.cmu.tetrad.search.RecursiveBlocking;
import edu.cmu.tetrad.search.test.MsepTest;
import edu.cmu.tetrad.search.util... |
ff7e299eef3bfef4284da969776f3cf270b5f1581a92a0b053da72331f72e54b | Java | 16,380 | 461 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
6cf6e38917a9f278c08059266e4de44903fcdc5cf5e49dec88ec253bc1fe138d | Java | 16,441 | 450 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
bdba0c4a12a8157c21521f4dfa80c1d2f95401e1ec085f41b18cf592903f8123 | Java | 16,443 | 514 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
7443fd487425faf24c54f5e90416beda858cd88ea50ed04df024ee4cca3b650f | Java | 16,465 | 423 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
c84f47badbd397dd2982bc5833f04f4c4d505d485d548809cd7a68e4936a9b02 | Java | 16,501 | 519 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
104a4b9a8e69849eb02fdb4fa7ad4687785519c1a46c9fb31d6d65a609a3057d | Java | 16,557 | 370 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2026 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
5077d29a158a8d7c85ac9c9e12ba16e93588c910f43605cdb5828202aa74749c | Java | 16,559 | 417 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
d9b6fe13050c1afdeefa3f76876a36853ec8efb0015b5a635f652d14d6c7cf92 | Java | 16,577 | 409 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
2f612128f9bd654c16204ae9bf2f63cf5985a0f3fc8cf8719bb59bf5060c5a15 | Java | 16,584 | 403 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
18cc55bab4426e48ad7648f2244b3ae83bd1e84faf33a8e9b5216cbf32a40fe3 | Java | 16,598 | 428 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
be5a63aefc675598f9c6b73bcb7b561c9ebebad801009be776805a593bc50fa4 | Java | 16,605 | 463 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
d4c05756c6d765232bd9a96470c2b52fd76f23243e49456bbad654b47b60f9ff | Java | 16,626 | 421 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
78e2c3029b2e5222cfc6a566a23667f27fdfa07b3a201fe4634e1d0a4c118e69 | Java | 16,648 | 473 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
714a4baa18cc3631f5fe38c4aae10f819546e2d741513e95e301d0254dce9bac | Java | 16,653 | 453 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
f834c59cd9c8d4fd7c5c8752889ac5fdf72e9ed9bfe2667d361b3fc8cc1316cc | Java | 16,697 | 452 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
dd0615c7a89669f23d06d2dc0f6eccfc6599ac9f5367fffc6bb3f398608c742b | Java | 16,762 | 484 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
dd1697291ad36b59e584d9c39b9da494a9f8ada6438ca368eaaf55ebf2247023 | Java | 16,777 | 407 | /// ////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //... |
fae1952e6d3b872921c20c02d8904944132f83f6362654465a27630e8d2e1ee1 | Java | 16,792 | 561 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
baae7055b6a80a6ba5e8be982b07feaed85cb879b3a7e4e29ca35e0feb8605fc | Java | 16,811 | 500 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
ab9583baf06aae3696f8b81b36f28c23df21ea584133e98bfb5bee38b844e4c5 | Java | 16,828 | 361 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// Copyright (C) 1998, 1999, 2000, 2001, 2002, 2003, 2004, 2005, 2006, //
// 2007, 2008, 2009, 2010, 2014, 2015, 2022 by Peter Spirtes, Richard //
... |
5bef9370253ca8fdb2cad9d980505c220d3bf0b455016d9aa6cdae17b2260174 | Java | 16,832 | 519 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
c2dd072d0ada8f2faf9022ea0156a160f799a3c127f5937f82114b19c06ef17e | Java | 16,832 | 483 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
fbb973ba2f146c1ca9b83b794085ccf41801cbe0e0c88253e3d9ea10c6701bc8 | Java | 16,855 | 386 | package edu.cmu.tetrad.search;
import edu.cmu.tetrad.algcomparison.independence.IndependenceWrapper;
import edu.cmu.tetrad.data.DataSet;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.graph.GraphTransforms;
import edu.cmu.tetrad.sem.SemEstimator;
import edu.cmu.tetrad.sem.SemIm;
import edu.cmu.tetrad.sem.Sem... |
c7b29c88b1a0f13906e7b4c865c1b42bf175d538401098b92acb72cc462f985e | Java | 16,859 | 461 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
e1b4925b8ff1edaa64d2762dd83098fb280181008d4ea0c692b319bc159c5f2a | Java | 16,859 | 408 | package edu.cmu.tetrad.search.is;
import edu.cmu.tetrad.data.*;
import edu.cmu.tetrad.graph.Node;
import edu.cmu.tetrad.search.score.Score;
import org.apache.commons.math3.special.Gamma;
import edu.cmu.tetrad.util.TMath;
import java.util.List;
/**
* BDeu score (Dirichlet–multinomial, decomposable) with tunable equi... |
d982faed9906ad4202645ef1b90e4acd234a53ffbad4ccf9e862b9d0dfb84d7f | Java | 16,868 | 458 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
677862fa01b1e44bf2c3d17f61043554096477165e2918732339864cdd47265c | Java | 16,903 | 473 | /// ////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //... |
636b3b0865782e6fc2b4865ee609a3393169dc3352b1aeb98395012dc3cfc50f | Java | 16,905 | 331 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
d4cce682162b75a5ee31357a9b2f99f6e1b9e7f8697714d494f37eb45a7c97de | Java | 16,916 | 493 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
af226a0eaeba8d7c6f6839dc452acb3092feac487bbc108e129a3486f85c939d | Java | 16,949 | 430 | package edu.cmu.tetrad.search.harness;
import edu.cmu.tetrad.data.CovarianceMatrix;
import edu.cmu.tetrad.data.DataSet;
import edu.cmu.tetrad.data.DataTransforms;
import edu.cmu.tetrad.data.Knowledge;
import edu.cmu.tetrad.graph.*;
import edu.cmu.tetrad.search.Fask;
import edu.cmu.tetrad.search.score.SemBicScore;
impo... |
1e757349f89d4a2d3f81c89a1890625d760a2c27c7ed7b1b8590dab6c46421ab | Java | 16,964 | 415 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
9a176b1adf1b314dae3c7ba3960d7db960b2d7059fda42215d920f97c226143c | Java | 16,968 | 436 | package edu.cmu.tetrad.search;
import edu.cmu.tetrad.data.DataSet;
import edu.cmu.tetrad.graph.EdgeListGraph;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.graph.Node;
import edu.cmu.tetrad.search.score.AdditiveLocalScorer;
import edu.cmu.tetrad.search.score.CamAdditivePsplineBic;
import edu.cmu.tetrad.util... |
e3a9255adb8f1114f08bf97a80da42256a87c8f5b0f976c89472431647eac7f7 | Java | 16,971 | 486 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
3ec19bc527fe4941e1257c3d98109dd31e8a8a9b380011e4f0a0360fbbeedc9a | Java | 16,986 | 395 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
425e0a350070bb84ced68cc76b641ffd7ed91948740f4f9d0ba89838888ce86d | Java | 17,076 | 471 | /*-
* #%L
* Fiji distribution of ImageJ for the life sciences.
* %%
* Copyright (C) 2010 - 2026 Fiji developers.
* %%
* 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 ... |
25dd1ddcf4fb2f9a7c8669564d9a8dcede470de3735feb163eb7accc9323067e | Java | 17,092 | 425 | package edu.cmu.tetrad.search.is;
import edu.cmu.tetrad.data.*;
import edu.cmu.tetrad.graph.EdgeListGraph;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.graph.IndependenceFact;
import edu.cmu.tetrad.graph.Node;
import edu.cmu.tetrad.search.test.IndependenceResult;
import edu.cmu.tetrad.search.test.Independe... |
de1758ed0e9ecd5ce643c2a85559f58395fe7b5996f40d5b91c0f80ee39fcb16 | Java | 17,097 | 505 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
adf1196219d999aa9c86efb071a139deeddac881352d2133c772694baffe4260 | Java | 17,100 | 482 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
6541c48e6d83067936b76d89f8069689eb9a19c4bc48cc1c945a3c41277cbdab | Java | 17,113 | 521 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
5dcb7471f368776f7a69269e79de22a617dceb176fa6349d669bd2487d71a3b1 | Java | 17,133 | 449 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
b96fda473f241af1d3f72e1a6a69a04ce8dc81cf094454b02abd1716dfb141ff | Java | 17,178 | 365 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
7f802d69ff78a74f6b46236cd2ddda681dd067cbd3818c03d08d14a5dae97df1 | Java | 17,187 | 406 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
99eecdf586ac205f280da7906dc552a2ab6a5f7021c99c7d16227566c3518640 | Java | 17,192 | 530 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
3debd06b0b881c997e9ff54398b8542d21e590701ba7061c2852d5d795e93b4e | Java | 17,203 | 396 | package edu.cmu.tetradapp.model;
import edu.cmu.tetrad.data.DataModel;
import edu.cmu.tetrad.data.DataModelList;
import edu.cmu.tetrad.data.DataSet;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.sem.*;
import edu.cmu.tetrad.util.Parameters;
import edu.cmu.tetrad.util.TMath;
import edu.cmu.tetradapp.session.... |
a68be546dc228aefbdc31591f5ef4d954c8ba293a933bbf4e94f5d1b533428da | Java | 17,211 | 476 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
6a37d2a3a21924f2a5e26543fb46dd50d394b63d61d70143ef014017692ea44f | Java | 17,251 | 380 | /// ////////////////////////////////////////////////////////////////////////////
// VertexRepairSpeedBenchmark.java //
// //
// Hand-run benchmark comparing VertexRepairSearch wall time and repair //... |
f2a53779d8823520ac1a7c2212447ab9bcd6a48dabfe2ce3322af4e18138d1d3 | Java | 17,258 | 484 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
32ed3f3f8d2680ece58357a9b9f45348d67855732c0e89d2f8778fd09693d0fb | Java | 17,298 | 568 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
a5445be0b59023be8f4d9473d6b602b0a61e00a686495aa011113c3a24caf5cc | Java | 17,312 | 480 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
49df3fdd29b1ba0af33d022cc577d8e1a9b096fcc801868ad147af4f20f584bc | Java | 17,325 | 474 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
009b8d2f23ffefe55689df7eee6be5cbb774b74cf6b686974845ba84e9aa0467 | Java | 17,335 | 415 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
ebdae2626df320ec15c7d7b33b92b230d2511e1e0f61c84ec4218ae9e04b471d | Java | 17,338 | 473 | ///////////////////////////////////////////////////////////////////////////////
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
// and Richard Scheines. //
// //
... |
220309701609900cff546ef11adeb8b3a026d99300f5f3b394013ea9836ed397 | Java | 17,394 | 396 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
bcfcc095212d415f2cc2a2bfc8dd18eb38c990335c51a34a5431ed3ba82f3887 | Java | 17,465 | 451 | package edu.cmu.tetradapp.model;
import edu.cmu.tetrad.data.DataSet;
import edu.cmu.tetrad.data.DiscreteVariable;
import edu.cmu.tetrad.graph.Graph;
import edu.cmu.tetrad.graph.GraphUtils;
import edu.cmu.tetrad.graph.Node;
import edu.cmu.tetrad.hybridcg.HybridCgModel;
import edu.cmu.tetrad.util.Parameters;
import edu.... |
b18cb8daf154eca8fb2066ff01ff3411de89ea87d5504c299199d59faeaef039 | Java | 17,545 | 393 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
068849c3e9da9ac5ca47b920033e6075e0e8e253b9f352ee578781e824e9bdb4 | Java | 17,606 | 452 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
69e7d15952747caf967f11667234d7df97ebfd68ef694fc7e020ac98aee9d53d | Java | 17,722 | 388 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
160cef9de9893b8a1aba6fbbfad8db074067bf8d3f9360aacb661c214c55a2ae | Java | 17,734 | 346 | /// ////////////////////////////////////////////////////////////////////////////
// PhantomFcitReachabilityHarness.java (parallel) //
// //
// Reachability test for the NOSTALL deadlocks found by PhantomKernelEnumera... |
ba3ed716821c4a2795527d39ed9cf37bc5d2aca8c0429dac3b945e83ef24290b | Java | 17,753 | 581 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
29ce9ee5527b726e31050676532b9a107b530862d68fa57383248c3a7ad6858c | Java | 17,805 | 663 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
219901b7ae2fdd0ac871e1768b8688e4e110f19fb5679d3717bbef97989c48a6 | Java | 17,857 | 437 | ///////////////////////////////////////////////////////////////////////////////
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
// and Richard Scheines. //
// //
... |
2f4eb48f5f01885ccda1990599a8b473a63e187f2b3dd26f9ad67dda0606d7ac | Java | 17,881 | 569 | ///////////////////////////////////////////////////////////////////////////////
// For information as to what this class does, see the Javadoc, below. //
// //
// Copyright (C) 2025 by Joseph Ramsey, Peter Spirtes, Clark Glymour, //
... |
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