NMRPipe Processing Functions
IMG: Image Processing Utilities.

IMG provides some simple image processing filters primarily intended for 2D planes. Given a 2D plane Z_i,j, a given filter creates a new 2D plane Z'_i,j where a given point Z'_i=x,j=y is a function F( ) of all points in a rectangular region of the original 2D plane, where the region sizes are specified in terms of +/- points dx and dy:

      Z'_i=x,j=y = F( Z_k,m ) where k = x - dx to x + dx, and m = y - dy to y + dy.

Regions which extend past the edges of the image are wrapped to the opposite sides. The function applied is specified according to the following flags:

OPTIONS

-kern cList
This option is used to specify the coefficients C_k,m used in the case where a convolution in applied:

      Z'_i=x,j=y = C_k,mZ_{i+k-dx,j+m-dy} where k = 0 to 2 dx, and m = 0 to 2 dy.

-dx dx
Specifies dx, the +/- X-Axis size of the image processing neighborhood, in points.

-dy dy
Specifies dy, the +/- Y-Axis size of the image processing neighborhood, in points.

-thresh t
If a threshold option is given, only points in the original image which are greater than the specified will be used for computing F().

EXAMPLES

The following is an example of a convolution filter which corresponds to a simple form of image sharpening. The coefficients of the 3x3 convolution kernel are listed on multiple lines to emphasize their two-dimensional structure, although this is not required:

   nmrPipe -in image.dat \
   | nmrPipe -fn IMG -dx 1 -dy 1 -conv \
             -kern   -1 -1 -1 \
                     -1  9 -1 \
                     -1 -1 -1 \
     -out sharp.dat -ov

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last updated: Jan 22, 2009 / big frank

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