| Column Name |
Description |
| indexs |
The index of the spot. |
| grid_r |
The row index of the grid. |
| grid_c |
The column index of the grid. |
| spot_r |
The row index of the spot within the its grid. |
| spot_c |
The column index of the spot within the its grid. |
| area |
The number of pixels in the segmented spot. |
| Gmean |
The average pixel value within the spot: green band. |
| Gmedian |
The median pixel value within the spot: green band. |
| GIQR |
The interquartile range of
the logged pixel values within the spot: green band.
|
| Rmean |
The average pixel value within the spot: red band. |
| Rmedian |
The median pixel value within the spot: red band. |
| RIQR |
The interquartile range of
the logged pixel values within the spot: red band.
|
| bgGmean |
The average pixel value in the background region: green band. |
| bgGmedian |
The median pixel value in the background region: green band. |
| bgGSD |
The interquartile range of
the logged pixel values in the background region: green band.
|
| bgRmean |
The average pixel value in the background region: red band. |
| bgRmedian |
The median pixel value in the background region: red band. |
| bgRSD |
The interquartile range of
the logged pixel values in the background region: red band.
|
| valleyG |
Median of median image values in four neighbouring "valley" regions:
green band.
"Valley" regions are square regions between spots.
|
| valleyR |
Median of median image values in four neighbouring "valley" regions:
red band.
|
| morphG |
Value of a morphological opening of the green band image
at the nominal spot centre.
Openings and erosions (see below) use
a rectangular structuring element
with side lengths equal to
twice the average horizontal and vertical distances between spots.
|
| morphG.erode |
Value of a morphological erosion of the green band image
at the nominal spot centre. |
| morphG.close.open |
Value of a morphological closing followed by a morphological opening
of the green band image at the nominal spot centre. |
| morphR |
Value of a morphological opening of the red band image
at the nominal spot centre. |
| morphR.erode |
Value of a morphological erosion of the red band image
at the nominal spot centre. |
| morphR.close.open |
Value of a morphological closing followed by a morphological opening
of the red band image at the nominal spot centre. |
| logratio |
The base-2 log of the background-adjusted ratio, R/G,
using R/Gmedian for spot value and morphR/G for background.
|
| perimeter |
The perimeter of the spot as measured by
the number of pixels in the spot which have
a neighbouring pixel outside the spot.
Each pixel is considered to have 8 neighbours
in this process.
|
| circularity |
A measure of circularity of the spot equal to
area times four pi divided by
perimeter squared.
This is ideally one for circles and more than one for other shapes.
|
| badspot |
A flag which is one if
the spot area is greater than
the product of the horizontal and vertical
average spot separations,
and zero otherwise.
|
