Content-type: text/html Man page of X-GEN

X-GEN

Section: X-GEN Commands (1)
Updated: April 2005
Index Return to Main Contents
 

NAME

X-GEN - applycor  

SYNOPSIS

applycor [-relcor]  

DESCRIPTION

"applycor" takes the quantum efficiency correction generated in "qecor" or "analmr" and applies it to the intensities in a multiref. It then writes out a new multiref with the corrected I's and sigmas.

The corrections required to do this operation will be encapsulated in the USPLINE file, otherwise used primarily for spatial corrections. If you attempt to run "applycor" using a USPLINE file that has not had sensitivity correction values added to it by "qecor" or "analmr", "applycor" will notice that the USPLINE is unhelpful and will exit without changing anything.

On the grounds that any correction made to an intensity measurement has a finite error associated with it, the variances associated with each modified intensity measurement will be inflated according to the following formula:

var' = M * var + I * Q * (M - <M>) * (M - <M>)

The final standard deviation will the square root of var'. Here M is the magnitude of the correction applied to I, i.e.

I' = M * I

<M> is the mean value of the corrections, and Q is an inflation factor. By default, Q is 0.1, but it may be set to something else at run time. If we set Q to zero, then the standard deviations will simply be rescaled, rather than inflated. Research to date suggests that setting Q to zero gives the lowest R(merge) values, but that result is far from definitive, and it may depend on the quality of the remapping.

relcor
The magnitude of Q in the equation above. Thus, specifying "applycor -0" will set the value of Q to 0.
 

REPORTING BUGS

Report bugs to Andy Howard at howard@iit.edu or 312-567-5881.  

COPYRIGHT

Copyright © 2002, Illinois Institute of Technology. See the file 'LICENSE' for information on usage and redistribution of this file, and for a DISCLAIMER OF ALL WARRANTIES


 

Index

NAME
SYNOPSIS
DESCRIPTION
REPORTING BUGS
COPYRIGHT

This document was created by man2html, using the manual pages.
Time: 02:08:09 GMT, October 03, 2005