Description Usage Arguments Examples
View source: R/exported_functions.R
overviewSNlinks
is written to enable merging of homologue fractions.
Fractions of homologues will have more markers in coupling than in repulsion, whereas separate homologues will only have markers in repulsion.
1 2 | overviewSNlinks(linkage_df, LG_hom_stack, LG_number, LOD_threshold,
ymax = NULL, log = NULL)
|
linkage_df |
A data.frame as output of |
LG_hom_stack |
A data.frame with a column "SxN_Marker" specifying markernames, a column "homologue" specifying homologue cluster and "LG" specifying linkage group. |
LG_number |
Integer. Chromosome (linkage group) number. |
LOD_threshold |
Numeric. LOD threshold of linkages which are plotted. |
ymax |
Maximum y-limit of the plots. |
log |
Character string specifying the log filename to which standard output should be written. If NULL log is send to stdout. |
1 2 3 4 5 | data("SN_SN_P1", "LGHomDf_P1_1")
overviewSNlinks(linkage_df=SN_SN_P1,
LG_hom_stack=LGHomDf_P1_1,
LG_number=5,
LOD_threshold=3)
|
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