new feather of pt

[WeikangMa]

Hi: The PT was designed to measure two peaks at both side of equator or meridian. but sometimes, we want to measure the intensity of the reflection on the meridian. In this case, we want to measure this peak intensity and width of this reflection. We want subtract the background underneath the peak

[jiranun]

Hi Weikang,

Can you try to select 'Fitting Gaussians' as Background Subtraction Method and select peaks here?

This will try to fit 3 gaussian models at the center. You will see 3 Gaussians at the center with different colors after fitting. The top gaussian (red) parameters (area, sigma) will be in summary.csv as [Boxname] Meridian Sigma and [Boxname] Meridian Area.

I didn't test this feature a lot, so if you get any problem, please let me know.

Thanks, Jiranun

[WeikangMa]

I think I knew what you were talking about. Thanks

Thanks Weikang Ma Biophysics Collaborative Access Team ANL/APS/ Bldg 435B/ Sector 18 9700 S Cass Ave Argonne, IL 60439 Tel:630 252 0508

On Thu, Dec 21, 2017 at 2:14 PM, Jiranun Jiratrakanvong < notifications@github.com> wrote:

Hi Weikang,

Can you try to select 'Fitting Gaussians' as Background Subtraction Method and select peaks here?

[image: 34231041-113186ae-e5a0-11e7-9e56-52ea4f9e09fe-2] https://user-images.githubusercontent.com/13938351/34272905-c8f41ce0-e657-11e7-9501-cf3629509641.png

This will try to fit 3 gaussian models at the center. You will see 3 Gaussians at the center with different colors after fitting. The top gaussian parameters (area, sigma) will be in summary.csv as [Boxname] Meridian Sigma and [Boxname] Meridian Area.

I didn't test this feature a lot, so if you get any problem, please let me know.

Thanks, Jiranun

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/biocatiit/musclex/issues/6#issuecomment-353447234, or mute the thread https://github.com/notifications/unsubscribe-auth/AfgvN1hhuVz9V54wGVh6-HZe9bT6WVnuks5tCrwygaJpZM4RJB6f .

[WeikangMa]

The feature was already built in. I wasn’t paying attention to that. Thank you very much. Another thing you could help me is: Can you calculate the summed intensity of background subtraction images and put them in another cvs file. When we use QF, the background images were stored in bg folder, just add all the pixels together of each bg image and put the numbers in one folder. We need the number to scale the intensities between different experiments Thanks, Merry Christmas

On Thu, Dec 21, 2017 at 14:51 Weikang Ma wma6@iit.edu wrote:

I think I knew what you were talking about. Thanks

Thanks Weikang Ma Biophysics Collaborative Access Team ANL/APS/ Bldg 435B/ Sector 18 9700 S Cass Ave Argonne, IL 60439 Tel:630 252 0508

On Thu, Dec 21, 2017 at 2:14 PM, Jiranun Jiratrakanvong < notifications@github.com> wrote:

Hi Weikang,

Can you try to select 'Fitting Gaussians' as Background Subtraction Method and select peaks here?

[image: 34231041-113186ae-e5a0-11e7-9e56-52ea4f9e09fe-2] https://user-images.githubusercontent.com/13938351/34272905-c8f41ce0-e657-11e7-9501-cf3629509641.png

This will try to fit 3 gaussian models at the center. You will see 3 Gaussians at the center with different colors after fitting. The top gaussian parameters (area, sigma) will be in summary.csv as [Boxname] Meridian Sigma and [Boxname] Meridian Area.

I didn't test this feature a lot, so if you get any problem, please let me know.

Thanks, Jiranun

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/biocatiit/musclex/issues/6#issuecomment-353447234, or mute the thread https://github.com/notifications/unsubscribe-auth/AfgvN1hhuVz9V54wGVh6-HZe9bT6WVnuks5tCrwygaJpZM4RJB6f .

-- Thanks Weikang Ma Biophysics Collaborative Access Team ANL/APS/ Bldg 435B/ Sector 18 9700 S Cass Ave Argonne, IL 60439 Tel:630 252 0508