obtaining results in a table
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hello,
i am working with image properties on imagej and wanted to obtain properties like mean, min, max and std in a table. one problem is that standard deviation (std) is not included in the macro run("Measure") ?? function convert(format); dir1 = getDirectory("Choose Source Directory "); list = getFileList(dir1); //loop over the files in the source directory for (i=0; i<list.length; i++) { showProgress(i+1, list.length); open(dir1+list[i]); run("Measure"); setResult("Label", nResults-1, "+ getTitle"); } and this is the result i get mean min max 154.764 30 246 155.198 29 245 155.508 30 245 153.564 26 245 142.277 30 245 But with the code i wanted to get the name of the file as the first column, could someone help me please thank you -- Donny George |
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Hi Donny,
This should work function convert(format); dir1 = getDirectory("Choose Source Directory "); list = getFileList(dir1); //loop over the files in the source directory for (i=0; i<list.length; i++) { showProgress(i+1, list.length); open(dir1+list[i]); run("Measure"); title=getTitle(); setResult("Label", nResults, title); updateResults(); } adam On 6 May 2009, at 23:18, Donny George wrote: > hello, > > i am working with image properties on imagej and wanted to obtain > properties > like mean, min, max and std in a table. one problem is that standard > deviation (std) is not included in the macro run("Measure") ?? > > function convert(format); > dir1 = getDirectory("Choose Source Directory "); > list = getFileList(dir1); > //loop over the files in the source directory > > > for (i=0; i<list.length; i++) > { > showProgress(i+1, list.length); > open(dir1+list[i]); > run("Measure"); > setResult("Label", nResults-1, "+ getTitle"); > > } > > and this is the result i get > > mean min max > 154.764 30 246 > 155.198 29 245 > 155.508 30 245 > 153.564 26 245 > 142.277 30 245 > > > But with the code i wanted to get the name of the file as the first > column, > could someone help me please > > thank you > -- > Donny George Dr Adam Cliffe Research Fellow Rørth Lab Cell Migration Group Temasek Lifescience Laboratory 1 Research Link National University of Singapore Singapore 117604 tel: (65) 6872 8406 fax: (65) 6872 7007 |
Re: obtaining results in a table
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Adam Cliffe a écrit :
> Hi Donny, > > This should work > > function convert(format); > dir1 = getDirectory("Choose Source Directory "); > list = getFileList(dir1); > //loop over the files in the source directory > > > for (i=0; i<list.length; i++) > { > showProgress(i+1, list.length); > open(dir1+list[i]); > run("Measure"); > title=getTitle(); > setResult("Label", nResults, title); > updateResults(); > } > > > adam > > On 6 May 2009, at 23:18, Donny George wrote: > >> hello, >> >> i am working with image properties on imagej and wanted to obtain >> properties >> like mean, min, max and std in a table. one problem is that standard >> deviation (std) is not included in the macro run("Measure") ?? >> >> function convert(format); >> dir1 = getDirectory("Choose Source Directory "); >> list = getFileList(dir1); >> //loop over the files in the source directory >> >> >> for (i=0; i<list.length; i++) >> { >> showProgress(i+1, list.length); >> open(dir1+list[i]); >> run("Measure"); >> setResult("Label", nResults-1, "+ getTitle"); >> >> } >> >> and this is the result i get >> >> mean min max >> 154.764 30 246 >> 155.198 29 245 >> 155.508 30 245 >> 153.564 26 245 >> 142.277 30 245 >> >> >> But with the code i wanted to get the name of the file as the first >> column, >> could someone help me please >> >> thank you >> -- >> Donny George > > Dr Adam Cliffe > Research Fellow > Rørth Lab > Cell Migration Group > Temasek Lifescience Laboratory > 1 Research Link > National University of Singapore > Singapore 117604 > > tel: (65) 6872 8406 > fax: (65) 6872 7007 it seems you should set measurements before..see "Analyze"..."Set Measurments"... Fabrice. -- Senger Fabrice |
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Hello cliff
thankyou for the help. now it does work great. now i will just to make more experiments with them :) thankyou again don On Thu, May 7, 2009 at 10:12 AM, Senger Fabrice < [hidden email]> wrote: > Adam Cliffe a écrit : > > Hi Donny, >> >> This should work >> >> function convert(format); >> dir1 = getDirectory("Choose Source Directory "); >> list = getFileList(dir1); >> //loop over the files in the source directory >> >> >> for (i=0; i<list.length; i++) >> { >> showProgress(i+1, list.length); >> open(dir1+list[i]); >> run("Measure"); >> title=getTitle(); >> setResult("Label", nResults, title); >> updateResults(); >> } >> >> >> adam >> >> On 6 May 2009, at 23:18, Donny George wrote: >> >> hello, >>> >>> i am working with image properties on imagej and wanted to obtain >>> properties >>> like mean, min, max and std in a table. one problem is that standard >>> deviation (std) is not included in the macro run("Measure") ?? >>> >>> function convert(format); >>> dir1 = getDirectory("Choose Source Directory "); >>> list = getFileList(dir1); >>> //loop over the files in the source directory >>> >>> >>> for (i=0; i<list.length; i++) >>> { >>> showProgress(i+1, list.length); >>> open(dir1+list[i]); >>> run("Measure"); >>> setResult("Label", nResults-1, "+ getTitle"); >>> >>> } >>> >>> and this is the result i get >>> >>> mean min max >>> 154.764 30 246 >>> 155.198 29 245 >>> 155.508 30 245 >>> 153.564 26 245 >>> 142.277 30 245 >>> >>> >>> But with the code i wanted to get the name of the file as the first >>> column, >>> could someone help me please >>> >>> thank you >>> -- >>> Donny George >>> >> >> Dr Adam Cliffe >> Research Fellow >> Rørth Lab >> Cell Migration Group >> Temasek Lifescience Laboratory >> 1 Research Link >> National University of Singapore >> Singapore 117604 >> >> tel: (65) 6872 8406 >> fax: (65) 6872 7007 >> > Hum, > > it seems you should set measurements before..see "Analyze"..."Set > Measurments"... > > Fabrice. > > -- > Senger Fabrice > -- Donny George |
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In reply to this post by AdamC
hey cliffe
i used this code run("Measure"); title=getTitle(); setResult("Label", nResults-1, title); updateResults(); but since i want to run this like 2 or 3 times during my experiment, i would like to add something like setResult("Label", nResults-1, "Modified" title); and this doesnt work. would there be another format ??? thankyou again don On Thu, May 7, 2009 at 6:44 AM, Adam Cliffe <[hidden email]> wrote: > Hi Donny, > > This should work > > function convert(format); > dir1 = getDirectory("Choose Source Directory "); > list = getFileList(dir1); > //loop over the files in the source directory > > > for (i=0; i<list.length; i++) > { > showProgress(i+1, list.length); > open(dir1+list[i]); > run("Measure"); > title=getTitle(); > setResult("Label", nResults, title); > updateResults(); > } > > > adam > > > On 6 May 2009, at 23:18, Donny George wrote: > > hello, >> >> i am working with image properties on imagej and wanted to obtain >> properties >> like mean, min, max and std in a table. one problem is that standard >> deviation (std) is not included in the macro run("Measure") ?? >> >> function convert(format); >> dir1 = getDirectory("Choose Source Directory "); >> list = getFileList(dir1); >> //loop over the files in the source directory >> >> >> for (i=0; i<list.length; i++) >> { >> showProgress(i+1, list.length); >> open(dir1+list[i]); >> run("Measure"); >> setResult("Label", nResults-1, "+ getTitle"); >> >> } >> >> and this is the result i get >> >> mean min max >> 154.764 30 246 >> 155.198 29 245 >> 155.508 30 245 >> 153.564 26 245 >> 142.277 30 245 >> >> >> But with the code i wanted to get the name of the file as the first >> column, >> could someone help me please >> >> thank you >> -- >> Donny George >> > > Dr Adam Cliffe > Research Fellow > Rørth Lab > Cell Migration Group > Temasek Lifescience Laboratory > 1 Research Link > National University of Singapore > Singapore 117604 > > tel: (65) 6872 8406 > fax: (65) 6872 7007 > -- Donny George |
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