[MINC-users] glim_image

Jason Lerch minc-users@bic.mni.mcgill.ca
Mon Apr 11 09:32:04 2005


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Greetings again,

I've attached a graph which shows the difference - the data was 
generated using the following function:

y = 2 + 0.5x + Error

where x is a simple sequence between 0 and 10.

There are two regression lines through the graph. The one in blue fits 
a model including the intercept term, the one in red fits a model 
without an intercept. You can see that the red line takes on a value of 
0 when x=0 - and that therefore the fit is not as accurate as the blue 
line.

None of this stuff is specific to glim_image - this is all standard 
linear model statistics. One of the best online references that I know 
about is here:

http://www.itl.nist.gov/div898/handbook/

though there surely are others as well.

Good luck,

Jason


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Greetings again,


I've attached a graph which shows the difference - the data was
generated using the following function:


y = 2 + 0.5x + Error


where x is a simple sequence between 0 and 10.


There are two regression lines through the graph. The one in blue fits
a model including the intercept term, the one in red fits a model
without an intercept. You can see that the red line takes on a value
of 0 when x=0 - and that therefore the fit is not as accurate as the
blue line.


None of this stuff is specific to glim_image - this is all standard
linear model statistics. One of the best online references that I know
about is here:


http://www.itl.nist.gov/div898/handbook/


though there surely are others as well.


Good luck,


Jason



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7.48=200=200=207.48=20232.20=20223.49=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20233.78=20216.62=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20235.37=20215.90=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20236.96=20=
195.91=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20238.54=20245.16=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20240.13=20233.09=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20241.72=20245.87=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20243.30=20190.45=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20244.89=20=
216.34=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20246.48=20223.09=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20248.06=20170.06=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20249.65=20219.92=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20251.24=20281.03=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20252.82=20=
235.62=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20254.41=20238.66=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20256.00=20241.41=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20257.58=20228.76=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20259.17=20225.62=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20260.76=20=
228.58=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20262.34=20213.33=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20263.93=20217.44=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20265.52=20207.56=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20267.10=20235.69=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20268.69=20=
231.52=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20270.28=20236.44=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20271.86=20234.20=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20273.45=20232.63=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20275.04=20252.53=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20276.62=20=
248.15=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20278.21=20248.39=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20279.80=20190.69=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20281.38=20240.24=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20282.97=20268.41=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20284.56=20=
224.82=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20286.14=20237.65=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20287.73=20257.25=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20289.32=20249.21=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20290.90=20273.89=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20292.49=20=
251.27=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20294.08=20271.37=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20295.66=20210.01=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20297.25=20236.89=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20298.84=20210.78=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20300.42=20=
242.84=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20302.01=20241.85=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20303.60=20244.74=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20305.18=20277.56=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20306.77=20296.69=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20308.36=20=
249.09=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20309.94=20237.33=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20311.53=20263.62=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20313.12=20254.62=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20314.70=20249.23=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20316.29=20=
294.05=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20317.88=20281.20=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20319.46=20251.98=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20321.05=20175.48=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20322.64=20275.23=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20324.22=20=
270.96=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20325.81=20255.76=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20327.40=20241.04=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20328.98=20284.75=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20330.57=20251.33=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20332.16=20=
266.85=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20333.74=20310.67=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20335.33=20231.28=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20336.92=20274.38=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20338.50=20254.67=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20340.09=20=
233.18=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20341.68=20317.28=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20343.26=20298.15=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20344.85=20312.18=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20346.44=20247.68=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20348.02=20=
293.10=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20349.61=20280.74=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20351.20=20273.46=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20352.78=20249.17=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20354.37=20275.89=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20355.96=20=
291.75=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20357.54=20292.13=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20359.13=20239.51=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20360.72=20295.09=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20362.30=20282.07=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20363.89=20=
248.71=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20365.48=20243.81=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20367.06=20265.56=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20368.65=20257.62=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20370.24=20277.04=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20371.82=20=
282.68=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20373.41=20274.24=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20375.00=20295.98=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20376.58=20285.51=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20378.17=20273.14=20Tm=20=
(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20379.76=20=
267.43=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=20=
7.48=20381.34=20311.39=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20Tf=201=20Tr=20=
7.48=200=200=207.48=20382.93=20303.41=20Tm=20(l)=20Tj=200=20Tr=0A/F6=201=20=
Tf=201=20Tr=207.48=200=200=207.48=20384.52=20285.02=20Tm=20(l)=20Tj=200=20=
Tr=0A/F6=201=20Tf=201=20Tr=207.48=200=200=207.48=20386.10=20332.88=20Tm=20=
(l)=20Tj=200=20Tr=0AET=0AQ=20q=0A0.000=200.000=200.000=20RG=0A0.75=20w=0A=
[]=200=20d=0A71.73=2073.44=20m=20389.07=2073.44=20l=20S=0A71.73=2073.44=20=
m=2071.73=2066.24=20l=20S=0A135.20=2073.44=20m=20135.20=2066.24=20l=20S=0A=
198.67=2073.44=20m=20198.67=2066.24=20l=20S=0A262.13=2073.44=20m=20=
262.13=2066.24=20l=20S=0A325.60=2073.44=20m=20325.60=2066.24=20l=20S=0A=
389.07=2073.44=20m=20389.07=2066.24=20l=20S=0ABT=0A0.000=200.000=200.000=20=
rg=0A/F1=201=20Tf=2012.00=200.00=20-0.00=2012.00=2068.40=2047.52=20Tm=20=
(0)=20Tj=0A/F1=201=20Tf=2012.00=200.00=20-0.00=2012.00=20131.86=2047.52=20=
Tm=20(2)=20Tj=0A/F1=201=20Tf=2012.00=200.00=20-0.00=2012.00=20195.33=20=
47.52=20Tm=20(4)=20Tj=0A/F1=201=20Tf=2012.00=200.00=20-0.00=2012.00=20=
258.80=2047.52=20Tm=20(6)=20Tj=0A/F1=201=20Tf=2012.00=200.00=20-0.00=20=
12.00=20322.26=2047.52=20Tm=20(8)=20Tj=0A/F1=201=20Tf=2012.00=200.00=20=
-0.00=2012.00=20382.39=2047.52=20Tm=20(10)=20Tj=0AET=0A59.04=20109.75=20=
m=2059.04=20361.87=20l=20S=0A59.04=20109.75=20m=2051.84=20109.75=20l=20S=0A=
59.04=20160.17=20m=2051.84=20160.17=20l=20S=0A59.04=20210.59=20m=2051.84=20=
210.59=20l=20S=0A59.04=20261.02=20m=2051.84=20261.02=20l=20S=0A59.04=20=
311.44=20m=2051.84=20311.44=20l=20S=0A59.04=20361.87=20m=2051.84=20=
361.87=20l=20S=0ABT=0A/F1=201=20Tf=200.00=2012.00=20-12.00=200.00=20=
41.76=20106.41=20Tm=20(0)=20Tj=0A/F1=201=20Tf=200.00=2012.00=20-12.00=20=
0.00=2041.76=20156.83=20Tm=20(2)=20Tj=0A/F1=201=20Tf=200.00=2012.00=20=
-12.00=200.00=2041.76=20207.26=20Tm=20(4)=20Tj=0A/F1=201=20Tf=200.00=20=
12.00=20-12.00=200.00=2041.76=20257.68=20Tm=20(6)=20Tj=0A/F1=201=20Tf=20=
0.00=2012.00=20-12.00=200.00=2041.76=20308.11=20Tm=20(8)=20Tj=0A/F1=201=20=
Tf=200.00=2012.00=20-12.00=200.00=2041.76=20355.19=20Tm=20(10)=20Tj=0AET=0A=
59.04=2073.44=20m=0A401.76=2073.44=20l=0A401.76=20372.96=20l=0A59.04=20=
372.96=20l=0A59.04=2073.44=20l=0AS=0AQ=20q=0ABT=0A0.000=200.000=200.000=20=
rg=0A/F1=201=20Tf=2012.00=200.00=20-0.00=2012.00=20208.89=2018.72=20Tm=20=
(X-scale)=20Tj=0A/F1=201=20Tf=200.00=2012.00=20-12.00=200.00=2012.96=20=
201.69=20Tm=20(Y-scale)=20Tj=0AET=0AQ=20q=2059.04=2073.44=20342.72=20=
299.52=20re=20W=20n=0A0.000=200.000=201.000=20RG=0A0.75=20w=0A[]=200=20d=0A=
59.04=20155.98=20m=20401.76=20292.67=20l=20S=0A1.000=200.000=200.000=20=
RG=0A59.04=20101.61=20m=20401.76=20321.20=20l=20S=0AQ=0Aendstream=0A=
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--Boundary_(ID_FqB2HAv6dQB6GGTiiimTqw)
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On Apr 10, 2005, at 3:41 AM, Jamila Ahdidan wrote:

> Hi Jason,
> Well I have to say that I don't use glim_image to perform a VBM study,=20=

> but to perform a t test at each voxel to assess the difference between=20=

> my group of patients and my group of controls. So, I don't really know=20=

> whether I want to force to be 0 at x=3D0. (I don't really know what =
that=20
> means!).
> Do you think I'm using the wrong minc command, and if yes do you have=20=

> another idea?
> =A0
> Thanks a lot,
> Jamila
>
> Jason Lerch <jason@bic.mni.mcgill.ca> wrote:
>
> On Apr 9, 2005, at 6:51 PM, Jamila Ahdidan wrote:
>
> > My dilema is whether I should just keep
> > my good results and forget about the intercept in the
> > matrix, or I should stick to the intercept and
> > conclude that nothing is interpretable from my
> > results.
>
> Is there any reason to force the slope to be 0 at x=3D0? If you have
>  standard VBM density data, then that is an invalid assumption, since
>  there is every reason to allow the y to take on an arbitrary value at
> x=3D0, so you would include that column of ones for your intercept =
term.
>  If you have different data then this assumption might be valid -
> something that is the case, for example, when looking at asymmetry =
VBM.
>  But by and large you will want an intercept.
>
> Hope this helps,
>
> Jason
>
> _______________________________________________
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On Apr 10, 2005, at 3:41 AM, Jamila Ahdidan wrote:


<excerpt>Hi Jason,

Well I have to say that I don't use glim_image to perform a VBM study,
but to perform a t test at each voxel to assess the difference between
my group of patients and my group of controls. So, I don't really know
whether I want to force to be 0 at x=3D0. (I don't really know what that
means!).

Do you think I'm using the wrong minc command, and if yes do you have
another idea?

=A0

Thanks a lot,

Jamila


<bold><italic>Jason Lerch <<jason@bic.mni.mcgill.ca></italic></bold>
wrote:


On Apr 9, 2005, at 6:51 PM, Jamila Ahdidan wrote:


> My dilema is whether I should just keep

> my good results and forget about the intercept in the

> matrix, or I should stick to the intercept and

> conclude that nothing is interpretable from my

> results.


Is there any reason to force the slope to be 0 at x=3D0? If you have

 standard VBM density data, then that is an invalid assumption, since

 there is every reason to allow the y to take on an arbitrary value at=20=


x=3D0, so you would include that column of ones for your intercept term.

 If you have different data then this assumption might be valid -=20

something that is the case, for example, when looking at asymmetry VBM.

 But by and large you will want an intercept.


Hope this helps,


Jason


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 Yahoo! Mail - Find what you need with new enhanced search.
<color><param>0000,0000,EEEE</param>Learn more.</color></excerpt>=

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