Qstats - Calculate basic statistics for a QTL dataset.
Qstats [ -o output ] [ -i input ] [ -m mapfile ]
Qstats does some basic statistics on a dataset of quantitative traits. It plots a histogram and calculates the sample size, mean, variance standard deviation, skewness, kurtosis, and average deviation for a quantitative trait. The program also summarizes missing marker and trait data, as will as determining the marker types (dominant or codominant). Finally, Qstats will test whether markers are segregating at random. It requires a molecular map that could be a random one produced by Rmap, or a real one in the same format as the output of Rmap. The sample could be a randomly generated one from Rcross or a real one in the same format as the output of Rcross.
See QTLcart(1) for more information on the global options -h for help, -A for automatic, -V for non-Verbose -W path for a working directory, -R file to specify a resource file, -e to specify the log file, -s to specify a seed for the random number generator and -X stem to specify a filename stem. The options below are specific to this program.
If you use this program without specifying any options, then you will get into a menu that allows you to set them interactively.
The input format of the molecular map should be the same as that of the output format from the program Rmap. The input format of the individual data should be the same as the output format of the program Rcross.
% Qstats -i corn.cro -m corn.map
Calculates basic statistics on the dataset in corn.cro using the genetic linkage map in corn.map. The program will display and interactive menu for setting options and print out messages to the screen while running. These can be turned off with -A and -V, respectively. If the dataset in corn.cro has more than one trait, then all traits will be analyzed.
Are there any other statistics that we can do? Your suggestions are welcome.
Rmap(1), Rqtl(1), Rcross(1), LRmapqtl(1), SRmapqtl(1), Zmapqtl(1), JZmapqtl(1), Eqtl(1), Prune(1), Preplot(1), QTLcart(1)
In general, it is best to contact us via email (basten@statgen.ncsu.edu)
Christopher J. Basten, B. S. Weir and Z.-B. Zeng
Department of Statistics, North Carolina State University
Raleigh, NC 27695-8203, USA
Phone: (919)515-1934