Description Usage Arguments Value Examples
Takes in two maps with the aim of comparing the position of common markers. Creates a mapcomp object for plotting and summary.
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object1 |
Object inheriting class |
object2 |
Object inheriting class |
object |
Object of class |
x |
Object of class |
... |
Additional arguments |
An object of class mapcomp
with components:
commonmrk |
A matrix containing 5 columns with the names of all common markers for the two maps (mname), the chromosome mapped to in the first map (chr1), the position mapped to in the first map (pos1), the chromosome mapped to in the second map (chr2) and the position mapped to in the second map (pos2) |
samechr |
A matrix containing 5 columns as above. Differs from commonmrk in that duplicated markers in either map will have been removed, so all markers map to exactly one chromosome |
map1 |
The first map -
either the originally input object1, or object1$map if it
inherits class |
map2 |
The first map
- either the originally input object2, or object2$map if
it inherits class |
correlations |
The correlation between positions in map1 and map2 for each chromosome |
dup1 |
The names of markers duplicated in map1 |
dup2 |
The names of markers duplicated in map2 |
Plot produces for a comparison for each chromosome of positions of markers which are mapped to that chromosome in both maps
Summary function returns printed summary including - number of markers in each map; number of markers common to both maps; number of duplicated markers in each map; number of markers mapped to different chromosomes; correlations between positions on each chromosome.
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