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Both 1PL and 2PL models of these kinds can be implemented in generalized linear mixed or mixture modeling software with EM or maximum likelihood estimation (e.g., Zheng & Rabe-Hesketh, 2007; Vermunt & Magidson, 2008; von Davier, Xu & Carstensen, 2011).
Using smoothing splines implemented in generalized additive models [ 24], we plotted the log-odds of neonatal mortality [log(d/s), where d refers to the number of deaths and s the number of survivors] against birth weight, relative birth weight, and gestational age.
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Character weighting, which is required to account for probable different likelihoods of gene gains and losses, has been implemented in so-called generalized parsimony approaches by Sankoff and coworkers [ 53, 54] and considered in detail by Swofford and Maddison [ 47, 55].
In this work, thermoelastic analysis of a bi-layered structure is implemented in the context of generalized thermoelasticity, e.g. GL model.
The number of OTU-mapped reads was normalized across all samples using the variance-stabilized transformation method as implemented in DESeq2 using a generalized linear model (GLM).
Differential expression was computed using the generalized linear model implemented in the Bioconductor package DESeq2.
The simplest is POA (Partial-Order Alignment); a similar but more generalized method is implemented in the packages SAM (Sequence Alignment and Modeling System).
The family-based cohort was analyzed using linear regression-based generalized estimating equations implemented in the GWAF package for R [ 26] to account for within-family relatedness.
Generalized estimating equations (implemented in PROC GENMOD) were used to account for within-subject correlations induced by the repeated measures design.
The counts data were analyzed using generalized linear model implemented in DESeq package [ 39] with the factors "origin" and "transplant location".
As far as we know, the generalized profile as implemented in the PFTOOLS v2.3 package remains the only sequence alignment method that permits such a degree of detail in the design of an alignment scoring system for DNA sequences.
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