checkRd: (-1) CviCol.Rd:15: Lost braces; missing escapes or markup?
    15 | The \emph{Arabidopsis thaliana} genotype data is derived from a RIL cross between Columbia-0 (Col-0) and the Cape Verde Island (Cvi-0), where 367 individuals were genotyped for 90 genetic markers. This is a diploid population with three possible genotpe states \code{(k = 3)}, where the genotypes coded as {0, 1, 2}, where 0 and 2 represent the homozygous genotypes and 1 defines the heterozygous genotype. \cr
       |                                                                                                                                                                                                                                                                                                                   ^
checkRd: (-1) cal.pos.Rd:25: Lost braces; missing escapes or markup?
    25 | If \code{pop.typ = "RILn"} the number of generations of selfing is limited to 20 to ensure sensible input. The constructed object is returned as a R/qtl \code{cross} object with the appropriate class structure. For \code{"RILn"} populations the constructed object is given the class {"bcsft"} by using the \pkg{qtl} package conversion function \code{convert2bcsft} with arguments \code{F.gen = n} and \code{BC.gen = 0}. For \code{"ARIL"} populations the constructed object is given the class \code{"riself"}.
       |                                                                                                                                                                                                                                                                                            ^
checkRd: (-1) netgwas2cross.Rd:21: Lost braces; missing escapes or markup?
    21 |   If \code{pop.typ = "RILn"} the number of generations of selfing is limited to 20 to ensure sensible input. The constructed object is returned as a R/qtl \code{cross} object with the appropriate class structure. For \code{"RILn"} populations the constructed object is given the class {"bcsft"} by using the \pkg{qtl} package conversion function \code{convert2bcsft} with arguments \code{F.gen = n} and \code{BC.gen = 0}. For \code{"ARIL"} populations the constructed object is given the class \code{"riself"}.
       |                                                                                                                                                                                                                                                                                              ^
checkRd: (-1) simGeno.Rd:26: Lost braces
    26 |         code{con.dist = "Mt"}. The default value is 3.}
       |             ^