check_na

Check missing patterns in one layer of omics data Z

An implementation of estimating the Latent Unknown Clusters By Integrating Multi-omics Data (LUCID) model (Peng (2019) <doi:10.1093/bioinformatics/btz667>). LUCID conducts integrated clustering using exposures, omics information (and outcome information as an option). This package implements three different integration strategies for multi-omics data analysis within the LUCID framework: LUCID early integration (the original LUCID model), LUCID in parallel (intermediate integration), and LUCID in serial (late integration). Automated model selection for each LUCID model is available to obtain the optimal number of latent clusters, and an integrated imputation approach is implemented to handle sporadic and list-wise missingness in multi-omics data. Lasso-type regularity for exposure and omics features were added. S3 methods for summary and plotting functions were fixed. Fixed minor bugs.

Qiran Jia

LUCIDus

LUCID with Multiple Omics Data

Yinqi Zhao

David Conti

Jesse Goodrich

check_na function

<dl><dt>Z</dt>
<dd>A data matrix representing one layer of omics data</dd></dl>

Arguments

Check missing patterns in one layer of omics data Z — check_na

<dl>

<dt>Z</dt>
<dd>A data matrix representing one layer of omics data</dd>

</dl>

check_na: Check missing patterns in one layer of omics data Z

Description

Usage

Value

Arguments