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When determining the median, the data values are first ranked in order from the smallest value to the largest value.
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All median calculations for the S-estimator are performed within a fixed window, whereas the PWS in the outer median shares the data calculated for neighboring pixels, which facilitates practical implementation of the proposed algorithm.
The dramatic effect of the median centering procedure is evident when we look at the heatmap generated with (Figure 2A) and without (Figure 2B) median centering the data.
where τ=median{d n } is the median of the data set.
If the distance between the median and the data is longer than k × dF, it belongs to the abnormal data.
The lower and upper limits of the boxes represent the first and third quartiles, while the red horizontal line is the median of the data.
The reason for median centering the data is related to the difference in tissue types we are comparing.
Each point on scatter plots represent a single mouse, and each plot includes a horizontal line to indicate the median of the data.
The middle line in the box plot indicates the median of the data set.
Middle line in box plot indicates the median of the data set.
Gene filtering options of SMD were used for log transformation and median centering the data arraywise.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com