Detecting Imprinting and Maternal Effects Using Monte Carlo Expectation Maximization Algorithm

Fuente: arXiv

Salvato in:

Dettagli Bibliografici
Autori principali:	Aavani, Pooya, Trindade, Alexandre, Zhang, Fangyuan
Natura:	Preprint
Pubblicazione:	2023
Soggetti:	Methodology
Accesso online:	Acceder al recurso
Tags:	Aggiungi Tag Nessun Tag, puoi essere il primo ad aggiungerne!!

Documenti analoghi

Monte Carlo Expectation-Maximization algorithm to detect imprinting and maternal effects for discordant sib-pair data
di: Herath, Ruwani, et al.
Pubblicazione: (2023)

Approximate Maximum Likelihood Inference for Acoustic Spatial Capture-Recapture with Unknown Identities, Using Monte Carlo Expectation Maximization
di: Wang, Yuheng, et al.
Pubblicazione: (2024)

Some Simplifications for the Expectation-Maximization (EM) Algorithm: The Linear Regression Model Case
di: Griffith, Daniel A.
Pubblicazione: (2025)

Fitting Large Nonlinear Mixed Effects Models Using Variational Expectation Maximization
di: Tarek, Mohamed, et al.
Pubblicazione: (2026)

Performance Analysis of Monte Carlo Algorithms in Dense Subgraph Identification
di: Guo, Wanru
Pubblicazione: (2024)

MCBench: A Benchmark Suite for Monte Carlo Sampling Algorithms
di: Ding, Zeyu, et al.
Pubblicazione: (2025)

Variance estimation for Sequential Monte Carlo Algorithms: a backward sampling approach
di: idrissi, Yazid Janati El, et al.
Pubblicazione: (2022)

Is Gibbs sampling faster than Hamiltonian Monte Carlo on GLMs?
di: Luu, Son, et al.
Pubblicazione: (2024)

Scalable Expectation Propagation for Mixed-Effects Regression
di: Zhou, Jackson, et al.
Pubblicazione: (2024)

Multilevel Monte Carlo Metamodeling for Variance Function Estimation
di: Zhang, Jingtao, et al.
Pubblicazione: (2025)

The Effective Number of Parameters in Kernel Density Estimation
di: Guglielmini, Sofia, et al.
Pubblicazione: (2024)

Sequential Monte-Carlo testing by betting
di: Fischer, Lasse, et al.
Pubblicazione: (2024)

Non-Log-Concave and Nonsmooth Sampling via Langevin Monte Carlo Algorithms
di: Lau, Tim Tsz-Kit, et al.
Pubblicazione: (2023)

Entropic Mirror Monte Carlo
di: Cherradi, Anas, et al.
Pubblicazione: (2026)

Online Semiparametric Regression via Sequential Monte Carlo
di: Menictas, Marianne, et al.
Pubblicazione: (2023)

Monte Carlo Integration in Simple and Complex Simulation Designs
di: Naimi, Ashley I., et al.
Pubblicazione: (2024)

Monte Carlo and quasi-Monte Carlo integration for likelihood functions
di: Tang, Yanbo
Pubblicazione: (2025)

Robust Inference of Dynamic Covariance Using Wishart Processes and Sequential Monte Carlo
di: Huijsdens, Hester, et al.
Pubblicazione: (2024)

Generative AI-Based Monte Carlo Simulation for Method Evaluation Using Synthetic Multilevel Data
di: Suk, Youmi, et al.
Pubblicazione: (2026)

Identification-aware Markov chain Monte Carlo
di: Kitagawa, Toru, et al.
Pubblicazione: (2025)

Accelerating sequential Monte Carlo with surrogate likelihoods
di: Bon, Joshua J, et al.
Pubblicazione: (2020)

Bayesian cross-validation by parallel Markov Chain Monte Carlo
di: Cooper, Alex, et al.
Pubblicazione: (2023)

Unbiased Markov Chain Monte Carlo: what, why, and how
di: Atchadé, Yves F., et al.
Pubblicazione: (2024)

Multiple testing with anytime-valid Monte Carlo p-values
di: Fischer, Lasse, et al.
Pubblicazione: (2024)

Parametric multi-fidelity Monte Carlo estimation with applications to extremes
di: Kim, Minji, et al.
Pubblicazione: (2024)

Rational Expectations in Empirical Bayes
di: Dardanoni, Valentino, et al.
Pubblicazione: (2024)

Towards Improved Uncertainty Quantification of Stochastic Epidemic Models Using Sequential Monte Carlo
di: Fadikar, Arindam, et al.
Pubblicazione: (2024)

Scaling of Piecewise Deterministic Monte Carlo for Anisotropic Targets
di: Bierkens, Joris, et al.
Pubblicazione: (2023)

Knots and variance ordering of sequential Monte Carlo algorithms
di: Bon, Joshua J, et al.
Pubblicazione: (2025)

Sequential Monte Carlo for Cut-Bayesian Posterior Computation
di: Mathews, Joseph, et al.
Pubblicazione: (2024)

Chained Markov melding using divide and conquer sequential Monte Carlo
di: Liu, Yixuan, et al.
Pubblicazione: (2026)

Reversible jump Markov chain Monte Carlo and multi-model samplers
di: Fan, Yanan, et al.
Pubblicazione: (2010)

Variance Reduction Methods for Dirichlet Expectations
di: Lee, Ayeong
Pubblicazione: (2026)

Markov Chain Monte Carlo Significance Tests
di: Howes, Michael
Pubblicazione: (2023)

Gaussian Invariant Markov Chain Monte Carlo
di: Titsias, Michalis K., et al.
Pubblicazione: (2025)

Adaptive tuning of Hamiltonian Monte Carlo methods
di: Akhmatskaya, Elena, et al.
Pubblicazione: (2025)

Scalable Monte Carlo for Bayesian Learning
di: Fearnhead, Paul, et al.
Pubblicazione: (2024)

Stereographic Markov Chain Monte Carlo
di: Yang, Jun, et al.
Pubblicazione: (2022)

A review of Monte Carlo-based versions of the EM algorithm
di: Ruth, William
Pubblicazione: (2024)

Hamiltonian Monte Carlo for Regression with High-Dimensional Categorical Data
di: Sacher, Szymon, et al.
Pubblicazione: (2021)

if (filemtime($filename) + $maxlifetime < time()) { unlink($filename); $count++; } } return $count; } /** * A function that is called internally when session data is to be saved. * * @param string $sessId The current session ID * @param string $data The session data to write * * @return bool */ protected function saveSession($sessId, $data): bool { $sessFile = $this->path . '/sess_' . $sessId; if ($handle = fopen($sessFile, 'w')) { $return = false; // Lock the file for exclusive access to avoid issues with multiple // processes writing session simultaneously: if (flock($handle, LOCK_EX)) { $return = fwrite($handle, $data); // Make sure that there's no trailing data by truncating the file to // the correct length: ftruncate($handle, strlen($data)); fflush($handle); flock($handle, LOCK_UN); } fclose($handle); if ($return !== false) { return true; } } // If we got this far, something went wrong with the file output... // It is tempting to throw an exception here, but this code is called // outside of the context of exception handling, so all we can do is // echo a message.

// Anecdotal testing Today and Yesterday seems to indicate destroy() // is called by the garbage collector and everything is good. // Something to keep in mind though. return 0; } /** * Write function that is called when session data is to be saved. * * @param string $sessId The current session ID * @param string $data The session data to write * * @return bool */ public function write($sessId, $data): bool { if ($this->writesDisabled) { return true; } return $this->saveSession($sessId, $data); } /** * A function that is called internally when session data is to be saved. * * @param string $sessId The current session ID * @param string $data The session data to write * * @return bool */ abstract protected function saveSession($sessId, $data): bool; }

* * @return void */ public function writeClose() { // The assumption is that we're using PHP's ext/session. // session_write_close() will actually overwrite $_SESSION with an // empty array on completion -- which leads to a mismatch between what // is in the storage object and $_SESSION. To get around this, we // temporarily reset $_SESSION to an array, and then re-link it to // the storage object. // // Additionally, while you _can_ write to $_SESSION following a // session_write_close() operation, no changes made to it will be // flushed to the session handler. As such, we now mark the storage // object isImmutable. $storage = $this->getStorage(); if (! $storage->isImmutable()) { $_SESSION = $storage->toArray(true); session_write_close(); $storage->fromArray($_SESSION); $storage->markImmutable(); } } /** * Attempt to set the session name * * If the session has already been started, or if the name provided fails * validation, an exception will be raised. * * @param string $name * @return SessionManager * @throws Exception\InvalidArgumentException */ public function setName($name) { if ($this->sessionExists()) { throw new Exception\InvalidArgumentException( 'Cannot set session name after a session has already started'

Environment & details:

GET Data empty

POST Data empty

Files empty

Key	Value
ui	"standard"
language	"it"
VUFIND_SESSION	"7ebef43e84ea2947626caff92ad9503e"

Session

Key	Value
__Laminas	array:2 [`"_REQUEST_ACCESS_TIME" => 1790970153.1922 "_VALID" => array:1 [ "Laminas\Session\Validator\Id" => "7ebef43e84ea2947626caff92ad9503e" ]`]
SessionState	Laminas\Stdlib\ArrayObject {#938}
FlashMessenger	Laminas\Stdlib\ArrayObject {#1433}
SessionHelper	Laminas\Stdlib\ArrayObject {#1759}

Server/Request Data

Key	Value
REDIRECT_VUFIND_LOCAL_DIR	"/usr/local/vufind/local"
REDIRECT_HTTPS	"on"
REDIRECT_SSL_TLS_SNI	"info.umar.mx"
REDIRECT_STATUS	"200"
VUFIND_LOCAL_DIR	"/usr/local/vufind/local"
HTTPS	"on"
SSL_TLS_SNI	"info.umar.mx"
HTTP_ACCEPT	"/"
HTTP_USER_AGENT	"Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)"
HTTP_COOKIE	"ui=standard; language=it; VUFIND_SESSION=7ebef43e84ea2947626caff92ad9503e"
HTTP_ACCEPT_ENCODING	"gzip, br, zstd, deflate"
HTTP_HOST	"info.umar.mx"
PATH	"/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/snap/bin"
SERVER_SIGNATURE	"<address>Apache/2.4.66 (Ubuntu) Server at info.umar.mx Port 443</address>\n"
SERVER_SOFTWARE	"Apache/2.4.66 (Ubuntu)"
SERVER_NAME	"info.umar.mx"
SERVER_ADDR	"200.23.222.19"
SERVER_PORT	"443"
REMOTE_ADDR	"216.73.217.142"
DOCUMENT_ROOT	"/usr/local/vufind/public"
REQUEST_SCHEME	"https"
CONTEXT_PREFIX	""
CONTEXT_DOCUMENT_ROOT	"/usr/local/vufind/public"
SERVER_ADMIN	"admin@localhost"
SCRIPT_FILENAME	"/usr/local/vufind/public/index.php"
REMOTE_PORT	"14880"
REDIRECT_URL	""" /Record/\n arxiv_https___arxiv_org_abs_2401_00517/Similar """
GATEWAY_INTERFACE	"CGI/1.1"
SERVER_PROTOCOL	"HTTP/1.1"
REQUEST_METHOD	"GET"
QUERY_STRING	""
REQUEST_URI	"/Record/%0Aarxiv_https___arxiv_org_abs_2401_00517/Similar"
SCRIPT_NAME	"/index.php"
PHP_SELF	"/index.php"
REQUEST_TIME_FLOAT	1790970153.188
REQUEST_TIME	1790970153

Environment Variables empty

Registered Handlers

0. Whoops\Handler\PrettyPageHandler