News

Release 1.2.0 (Oct 18, 2018)

• Added .onLoad()
• Added osmasem() and its related functions.
• Added the argument type=c("tssem", "osmasem") in pattern.na().
• Added datasets Gnambs18 and vanderPol17.

Release 1.1.0 (May 09, 2018)

• Released to CRAN.
• Added checkRAM().
• Added list.output argument in smdMTS() and smdMES().
• Added dataset Gleser94.
• Added dataset Scalco17.
• Modified plotting methods for lavaan models and wls objects.
• Fixed a bug in list2matrix() for 2x2 matrices when the diag=FALSE.
• Fixed a minor bug in asyCov() with acov="weighted" or "unweighted" when the cor.analysis=TRUE with covariance matrices as the input.

Release 1.0.0 (January 12, 2018)

• Released to CRAN.
• Added lavaan in import.
• Changed the defaults of tssem1(): From method="FEM" to method="REM", From RE.type="Symm" to RE.type="Diag", and From acov="individual" to acov="weighted."
• Added tssemParaVar() to estimate heterogeneity of parameter estimates in tssem approach.
• Added basic tests.
• Added fixed.x=FALSE automatically in uniR2lavaan().
• Fixed coef.wls() so that it always follows the order of the parameter estimates in vcov.wls()
• Rename bootMASEM functions to bootuniR functions.
• Changed the variable names in the output of asyCov().

Release 0.9.16 (September 29, 2017)

• Released to CRAN.
• Added bootMASEM functions.
• Renamed the argument my.df to Cov in the tssem1 family.
• Renamed the argument my.df to Cor in uniR1().
• Renamed the argument asyCov to aCov in the wls() and tssem2().
• Renamed the argument check.asyCov to check.aCov in is.pd().
• Revised meta2semPlot() so that it generates nicer variable labels.
• Changed the variable names in Becker94 so that they work better with lavaan2RAM().
• Revised lavaan2RAM() to work with mean structure.
• Revised as.mxMatrix() to work with definition variables.

Release 0.9.14 (May 18, 2017)

• Released to CRAN.
• Fixed a minor bug reported by GerardCY in meta() when lm() fails to get the starting values for coef.constraints.
• Added rCor(), rCorPop(), rCorSam(), summary.CorPop(), and print.summary.CorPop.
• Fixed a minor bug reported by John Ma when there are more than 120 variables in tssem1FEM().
• Revised the formula in calculating the standard error in uniR1() by using the second improved approximation of Schmidt and Hunter (2015, p. 101)
• Added smdMTS() and smdMES() to calculate standardized mean differences for multiple treatment studies and for multiple end-point studies.

Release 0.9.12 (January 23, 2017)

• Released to CRAN.
• Explicitly stated "SLSQP" as the optimizer in metaSEM as "CSOLNP" is the default optimizer in OpenMx 2.7.4.
• Revised and renamed impliedSigma() to impliedR().
• Fixed a bug in uniR2mx() that does not work for models with latent variables.
• Added dataset Cooke16.
• Changed solve() to chol2inv(chol()) and ginv() for matrix inversion.
• Added dataset Boer16.
• Added uniR1(), uniR2mx(), and uniR2lavaan().
• Modified a variable name in Becker09.
• Minor changes on how errors are handled in the main functions.
• Added datasets Nohe15A1 and Nohe15A2
• Modified some variable names in Hunter83

Release 0.9.10 (August 18, 2016)

• Released to CRAN.
• Added impliedSigma() to calculate the model implied correlation or covariance matrix based on the RAM model
• Added VarCorr() to extract variance component matrix for the class meta objects.
• Fixed a minor bug in summary.tssem1FEM that throws an error when tT is NA.
• Added a check on the lengths of df and n in tssem1FEM() and tssem1REM().
• Changed mxFitFunctionAlgebra() to mxFitFunctionMultigroup() in tssem1FEM().
• Fixed a minor bug in lavaan2RAM() that does not honor the std.lv argument.
• Modified the vignette and added examples.
• Changed the definition of is.pd() from Matrix::nearPD to MASS::mvrnorm().

Release 0.9.8 (April 16, 2016)

• Released to CRAN
• Returned NA rather than error in calculating 95% CI of RMSEA when there are errors in summary.wls().
• Fixed a minor bug in meta() that does not give a starting value on the last preditcor with intercept.constraints=0
• Added lavaan2RAM() to convert lavaan models to RAM models
• Added RMSEA 95% CI for wls and tssem1FEM classes

Release 0.9.6 (October 31, 2015)

• Released to CRAN
• Added several packages in NAMESPACE to satisfy R developmental version's (3.3.0) requirements
• Added ellipse package in imports
• Fixed a bug reported by S.-F. Cheung in rerun() for tssem1FEM objects
• Added acov argument in asyCov() and tssem1()
• Modified wls(diag.constraints=FALSE) so that "mediators" are properly handled
• Added datasets Norton13 and Roorda11
• Changed default model.name in tssem1REM(), tssem1FEM() and wls() to avoid potential error code with OpenMx 2.2.6
• Added RE.constraints argument and "User" option in RE.type argument in tssem1() and tssem1REM()

Release 0.9.4 (June 7, 2015)

• Modified to fit the CRAN policies
• Removed deltaMethod()
• Reverted the RE.lbound from NA to 1e10 in meta() and meta3()
• Changed the default "Optimality tolerance" to "6.3e-14" in OpenMx
• Changed the default "Gradient iterations" to "2" in OpenMx
• Changed the default arguments in rerun()

Release 0.9.3-2 (May 25, 2015)

• Changed the RE.lbound from 1e10 to NA in meta() and meta3()
• Added trunction (0 and 1) in calculating R2 in summary.meta()
• Changed the default optimizer from "NPSOL" to "SLSQP" (default in OpenMx)
• Changed the default "Gradient algorithm" to "central" in OpenMx
• Added metaSEM.Rnw in vignettes

Release 0.9.3-1 (May 12, 2015)

• Corrected a typo in the example of Aloe14 (reported by Fred Li)
• Modified to fit R-3.2.0

Release 0.9-2 (Jan 23, 2015)

• Added dataset Cheung00
• Added check.asyCov and cor.analysis arguments in is.pd()

Release 0.9-1 (Dec 22, 2014)

• Added citation in "Frontiers in Psychology"
• Released after the official release of OpenMx 2.0
• Removed dataset Craft03 which is duplicated of Becker09

Release 0.9-0 (Nov 16, 2014)

• Added semPlot package in Suggests and meta2semPlot() to convert wls objects to semPlotModel objects
• Fixed a bug in tssem1REM() that may throw away correlation coefficients when there are missing correlations (not missing variables)
• Added byrow argument in vec2symMat()
• Added datasets Aloe14 and Becker09
• Removed ellipse package in the dependence
• Added silent=TRUE and run=TRUE arguments in most functions
• Fixed the package to work in OpenMx 2.0
• Used labels rather than Amatrix and Smatrix in wls() and tssem2()
• Fixed a bug in create.mxMatrix() to respect byrow=TRUE for "Symm" and "Stand" types

Release 0.8-5 (Jun 6, 2014)

• Change "." to "_" in datasets Jaramillo05 and wvs94a, and indirectEffect.R
• Added pattern.n() to display the accumulative sample sizes of the matrices
• Added a function deltaMethod() to calculate approximate sampling variance or covariance matrix
• Added methods for coef.MxRAMModel and vcov.MxRAMModel
• Modified the formula to calculate SRMR in summary.tssem1FEM()
• Added xlim and ylim arguments in plot.meta()
• Added datasets wvs94b and BCG
• Renamed the dataset wvs94 to wvs94a
• Revised is.pd() so that it returns NA rather than throws an error when there are NA in the input matrices
• Added byrow argument in create.mxMatrix()
• Added pattern.na() to display the pattern of missing data in TSSEM
• Fixed a bug in asyCov() returning an error in diffferent dimensions when the input is a list of 2x2 matrices
• Fixed a bug reported by Andre Plamondon that tssem1FEM() returns an error when acovS is a scalar

Release 0.8-4 (May 1, 2013)

• Fixed an issue in diag() that breaks the metaSEM in R-3.0.0
• Added Diag() that preserves the same functions as diag() prior to R-3.0.0
• Added dataset Craft03

Release 0.8-2 (Dec 28, 2012)

• Finalized features for release

Release 0.8-1 (Nov 28, 2012)

• Added automatic constraint on the diagonals when diag.constraints=FALSE argument in wls() for cor.analysis=TRUE. It is usually not necessary to set diag.constraints=TRUE unless there are mediators.
• Added meta3X() to handle missing covariates with FIML for 3-level meta-analysis
• Fixed the issue that there are missing levels in "cluster" in meta3() (and reml3()) reported by David Stanley
• Modified meta(), reml(), meta3() and reml3() functions so that intercept.constraints, coef.constraints, RE.constraints, RE2.constraints and RE3.constraints may accept a scalar or vector as inputs
• Added mx.algebras argument in wls() and tssem2()
• Added datasets Hunter83 and Jaramillo05
• Changed the default in as.mxMatrix. If 'x' is not a matrix, as.matrix(x) is applied on 'x' instead of throwing an error.

Release 0.8-0 (Aug 30, 2012)

• Finalized features for release

Release 0.7-1 (Aug 20, 2012)

• Removed argument RE_diag and added RE.type in tssem1() and tssem1REM()
• Removed standard error, z value and p values from summary() when intervals.type="LB"
• Added rerun() to refit models
• Renamed all mx fitted objects to mx.fit
• Fixed a bug in .minus2LL(), tssem1FEM() and summary.tssem1FEM in calculating the df of the independence model when cor.analysis=FALSE
• Fixed a bug in tssem1REM() that my.df is a list of covariance matrices when cor.analysis=TRUE
• Fixed a bug in calculating acov (solve()) in asyCov(), indirectEffect, tssem1.FE()
• Added indirectEffect() to calculate the asymptotic covariance matrix of indirect and direct effects
• Added create.Fmatrix() and create.mxMatrix() to create mxMatrix objects
• Added df.adjustment argument in summary.wls()
• Rewrote wls() using RAM specification (A, S and F matrices)
• Added diag.constraints argument in wls() to constrain diagonals as 1
• Improved efficiency by removing the call on installed.packages() and summary() from OpenMx
• Fixed a bug in vec2symMat() reported by Yonghao Lim
• Added meta3() and reml3() for 3-level meta-analysis
• Added datasets Becker92, Becker94, Cooper03, Mak09, issp05 and Bornmann07
• Added I2 and R2 arguments to calculate heterogeneity and explained variance in meta()
• Rewrote meta() so that the predictors are treated as design matrix rather than as variables
• Revised meta() to replace NA with 1e5 in v object
• Renamed coeff.constraints argument to coef.constraints in meta()
• Added homoStat argument in summary.meta()
• Renamed tssem1FE() and tssem1RE() to tssem1FEM() and tssem1REM()

Release 0.7-0 (Nov 6, 2011)

• Fixed a bug in meta() that does not include RE.lbound in Tau matrix when RE.lbound is a matrix
• Revised tssemFE() to handle incomplete data in the first group
• Added tssem1RE() for random-effects TSSEM
• Renamed tssem1() to tssem1FE() for fixed-effects TSSEM
• Modified tssem1() to be a wrapper for tssem1FE() and tssem1RE()
• Modified tssem2() to fit both fixed- and random-effects structural models from tssem1()
• Added "cluster" argument in tssem1.FE() and some methods for it
• Added "select" argument in coef.meta() and vcov.meta()
• Fixed a bug by removing the characters in matrix column when OpenMx 1.1 is used
• Fixed a bug in asyCov() that uses only the first sample size

Release 0.6-0 (May 24, 2011)

• Added a dataset WVS94
• Changed dropNA argument from TRUE to FALSE in asyCov()
• Added data argument in meta() and reml()
• Fixed a bug by addinng dimnames in M matrix in meta() when OpenMx 1.1 is used
• Fixed a bug in summary.meta(), summary.reml() and summary.wls() when OpenMx 1.1 is used
• Added plot() method for multivariate meta-analysis
• Added the ellipse package on "Imports" in the DESCRIPTION
• Added the metafor package on "Suggests" in the DESCRIPTION

Release 0.5-4 (March 19, 2011)

• Fixed a bug in tssem1() when OpenMx 1.0.6 is used
• Fixed a bug in tssem1() which ignores start.values argument

Release 0.5-3 (February 20, 2011)

• Added model.name argument in tssem1(), tssem2(), wls(), meta() and reml()
• Added anova() method for wls, meta and reml objects
• Added no. of studies and no. of observed statistics in reml object (Ad-hoc)
• Used Tau2 to represent variance component in both meta() and reml()
• Fixed a bug in meta() that exists when no. of predictors is larger than 1

Release 0.5-2 (December 11, 2010)

• Added name argument in as.mxMatrix()
• Added reml() to estimate variance components with REML

Release 0.5-1 (October 10, 2010)

• Added bdiagMat() and bdiagRep() functions to create block diagonal matrix
• Fixed a bug in meta() that ignored RE.lbound when RE.constraints was used
• Fixed a bug in readFullMat() that converts data into data.frames rather than matrices

Release 0.5-0 (October 2, 2010)

• Added vcov() methods for tssem1, wls objects
• Added coef() methods for tssem1, wls and meta objects

Release 0.3-9 (September 24, 2010)

• Added a vignette

Release 0.3-8 (September 20, 2010)

• Added suppressWarnings = TRUE in meta(), tssem1(), tssem2(), and wls()
• Added OpenMx.status[[1]] into summary method

Release 0.3-7 (September 19, 2010)

• Added vec2symMat(), matrix2bdiag() and homoStat() functions
• Moved startValues(), minus2LL() and indepwlsChisq() to hidden functions
• Updated datasets on Cheung09 and Digman97

Release 0.3-6 (September 16, 2010)

• Renamed the package to "Meta-Analysis using Structural Equation Modeling"
• Added vcov() method for meta object

Release 0.3-5 (September 14, 2010)

• Fixed a few bugs

Release 0.3-4 (September 12, 2010)

• Added summary.meta() for meta objects

Release 0.3-3 (September 8, 2010)

• Added new arguments in asyCov()
• Added meta() for univariate and multivariate meta-analysis
• Added as.mxMatrix() to convert matrices to mxMatrices

Release 0.3-2 (August 29, 2010)

• Added indepWLSChisq() to calculate the chi-square statistic for an independent model based on WLS
• Added minus2LL() to calculate the chi-square statistic for independent and saturated models based on ML
• Added summary.wls() and print.summary.wls() for wls objects
• Added summary.tssem1() and print.summary.tssem1() for tssem1 objects

Release 0.3-1 (August 09, 2010)

• First alpha release to R-forge
• Added basic functions for TSSEM

Reference manual