checkRd: (-1) TrueTrait.Rd:63: Lost braces
    63 | An additional column called \code{y.lm} is added if code{addLinearModel=TRUE}. In this case, \code{y.lm} reports the linear model predictions.
       |                                                         ^
checkRd: (-1) TrueTrait.Rd:71: Lost braces
    71 | additional column with linear model predictions \code{y.lm} is added if code{addLinearModel=TRUE}.  }
       |                                                                             ^
checkRd: (-1) conformityDecomposition.Rd:7: Lost braces
     7 | The function calculates the conformity based approximation \code{A.CF} of an adjacency matrix and a factorizability measure code{Factorizability}. If a module assignment \code{Cl} is provided, it also estimates a corresponding intermodular adjacency matrix. In this case, function automatically carries out the module- and conformity based decomposition of the adjacency matrix described in chapter 2 of (Horvath 2011). }
       |                                                                                                                                 ^
checkRd: (-1) conformityDecomposition.Rd:30: Lost braces
    30 | \item{Conformity}{a numeric vector whose entries correspond to the rows of code{adj}. If \code{Cl=NULL} then \code{Conformity[i]} is the conformity.
       |                                                                                ^
checkRd: (-1) consensusCalculation.Rd:127-128: Lost braces
   127 | \code{originCount}{A vector of length \code{nSets} that
       |                   ^
checkRd: (-1) consensusTOM.Rd:327: Lost braces
   327 | \item{saveConsensusTOMs}{a copy of the input{saveConsensusTOMs}.}
       |                                             ^
checkRd: (-1) newConsensusTree.Rd:38: Lost braces
    38 | \code{consensusOptions}{A copy of the input \code{consensusOptions}.}
       |                        ^
checkRd: (-1) newConsensusTree.Rd:39: Lost braces
    39 | \code{inputs}{A copy of the input \code{inputs}.}
       |              ^
checkRd: (-1) newConsensusTree.Rd:40: Lost braces
    40 | \code{analysisName}{A copy of the input \code{analysisName}.}
       |                    ^
checkRd: (-1) newNetworkOptions.Rd:75: Lost braces
    75 | code{\link{newCorrelationOptions}}
       |     ^
checkRd: (-1) plotColorUnderTree.Rd:93: Lost braces
    93 | equally spaced values; code{"edge"} means aligning edges of the first and last rectangles on the edges of the plot
       |                            ^