Loci in a list of QTL objects are grouped by position. Loci are declared to be colocalised if the confidence intervals on locus position overlap. When the position of a QTL is poorly defined and confidence intervals are large, the locus colocalises with many other loci, probably erroneously. To combat this, set a maximum length using the argument threshold; QTL with confidence intervals longer than this will be excluded from clustering.
1 | cluster_qtl(chr, qtl_list, model_fit_list, threshold = NULL)
|
chr |
A numeric vector listing which chromosomes are to be plotted. |
qtl_list |
A list of QTL objects from r/qtl (i.e list(object1, object2, ...)) |
threshold |
Maximum length in centimorgans above which QTL are considered to be poorly defined and excluded from clustering. |
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