Time-Resolved Fluorescence Wiki

configuring_symphotime64_after_installation

Anonymous (anonymous@undisclosed.example.com) — 2023-02-17T12:39:29+00:00

2015/01/22 16:45		current
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-		+	{{tag> SymPhoTime software howto}}
-	{{tag> SPT64 SymPhoTime software howto}}	+
	~~TOC~~		~~TOC~~
	====== Configuring SymPhoTime64 ======		====== Configuring SymPhoTime64 ======

supported_mt200_pc_configuration_for_symphotime_32

Anonymous (anonymous@undisclosed.example.com) — 2016-08-25T11:24:41+00:00

2015/10/28 10:37		current
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-	{{tag> SymPhoTime MT200 MicroTime SPT32}}	+	{{tag> SymPhoTime MT200 MicroTime SPT32 PC}}
	~~TOC~~		~~TOC~~

software

Anonymous (anonymous@undisclosed.example.com) — 2025-05-28T07:47:47+00:00

2025/05/28 09:18		current
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	{{tag> software acquisition analysis}}		{{tag> software acquisition analysis}}

-	~~TOC~~

	====== Software ======		====== Software ======

start

Anonymous (anonymous@undisclosed.example.com) — 2021-06-17T14:47:30+00:00

2020/05/04 14:11		current
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-	<WRAP center round box 60%>
-	===== News from the community=====
-	* 29.04.20 [[https://www.fret.community/announcement-protein-folding-and-dynamics-webinar/\|Protein folding and dynamics Webinar-Series.]]
-	* 14.04.20 [[https://analyticalscience.wiley.com/do/10.1002/was.00050003/full/bioimagedataanalysis.pdf\|Bioimage Data Analysis.]] New Expanded version of a nice open-source introduction. \\ \\
-	* 14.04.20 [[https://science.sciencemag.org/content/368/6486/78\|De novo design of protein logic gates.]] Exciting fundamental enzymology work. Chen et al. describe the design of logic gates that can regulate protein association. \\ \\
-
-
-
-	[[general:community_news\|...see more...]]
-	</WRAP>

supported_mt200_pc_configuration_for_symphotime_64

Anonymous (anonymous@undisclosed.example.com) — 2023-02-17T12:44:38+00:00

2023/02/17 13:44		current
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-	{{tag>SymPhoTime MicroTime200 MicroTime100 Scanner PI Physik_Instrumente E725 E710 MadCityLabs Mad_City_Labs PC}}	+	{{tag>SymPhoTime MicroTime200 Scanner PI Physik_Instrumente E725 E710 MadCityLabs Mad_City_Labs PC}}
	~~TOC~~		~~TOC~~

support_plane_analysis

Anonymous (anonymous@undisclosed.example.com) — 2014-01-21T16:46:58+00:00

2014/01/21 17:46		current
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	===== References =====		===== References =====

-	Lakowicz JR (1999)// Principles of Fluorescence Spectroscopy//, 2nd edn. Kluver Academic/Plenum Publishers, New York (available in room C202)*	+	*Lakowicz JR (1999)// Principles of Fluorescence Spectroscopy//, 2nd edn. Kluver Academic/Plenum Publishers, New York

tcspc_external_markers

Anonymous (anonymous@undisclosed.example.com) — 2020-09-14T16:01:28+00:00

2020/09/14 18:01		current
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	* PI Controller: E725		* PI Controller: E725
	* PI Controller: E710 \\		* PI Controller: E710 \\
-	* Controller: E727 \\	+	* PI Controller: E727 \\
	* Controller: C867.2U2 (PI wide range scanner)		* Controller: C867.2U2 (PI wide range scanner)
	* Controller: C867.262 (PI wide range scanner)		* Controller: C867.262 (PI wide range scanner)

welcome

Anonymous (anonymous@undisclosed.example.com) — 2026-04-23T08:17:27+00:00

2026/04/23 20:36	current
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	+	====== Welcome to your new DokuWiki ======
	+
	+	Congratulations, your wiki is now up and running. Here are a few more tips to get you started.
	+
	+	Enjoy your work with DokuWiki,\\
	+	-- the developers
	+
	+	===== Create your first pages =====
	+
	+	Your wiki needs to have a start page. As long as it doesn't exist, this link will be red: [[:start]].
	+
	+	Go on, follow that link and create the page. If you need help with using the syntax you can always refer to the [[wiki:syntax\|syntax page]].
	+
	+	You might also want to use a sidebar. To create it, just edit the [[:sidebar]] page. Everything in that page will be shown in a margin column on the side. Read our [[doku>faq:sidebar\|FAQ on sidebars]] to learn more.
	+
	+	Please be aware that not all templates support sidebars.
	+
	+	===== Customize your Wiki =====
	+
	+	Once you're comfortable with creating and editing pages you might want to have a look at the [[this>doku.php?do=admin&page=config\|configuration settings]] (be sure to login as superuser first).
	+
	+	You may also want to see what [[doku>plugins\|plugins]] and [[doku>templates\|templates]] are available at DokuWiki.org to extend the functionality and looks of your DokuWiki installation.
	+
	+	===== Join the Community =====
	+
	+	DokuWiki is an Open Source project that thrives through user contributions. A good way to stay informed on what's going on and to get useful tips in using DokuWiki is subscribing to the [[doku>newsletter]].
	+
	+	The [[https://forum.dokuwiki.org\|DokuWiki User Forum]] is an excellent way to get in contact with other DokuWiki users and is just one of the many ways to get [[doku>faq:support\|support]].
	+
	+	Of course we'd be more than happy to have you [[doku>teams:getting_involved\|getting involved]] with DokuWiki.

how_to_reinstall_symphotime

Anonymous (anonymous@undisclosed.example.com) — 2025-04-09T10:56:18+00:00

2025/04/09 12:55		current
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	Updating from Windows 10 to Windows 11 should work smoothly, and all software should stay as it is. However it is a good idea to back-up the files mentioned below.		Updating from Windows 10 to Windows 11 should work smoothly, and all software should stay as it is. However it is a good idea to back-up the files mentioned below.
		+
	Please note: The Framegrabber MOU camera is not compatible with Windows 11 Windows 11 works with the newer USB MOU camera.		Please note: The Framegrabber MOU camera is not compatible with Windows 11 Windows 11 works with the newer USB MOU camera.
	==== Getting everything from the old computer ====		==== Getting everything from the old computer ====

contributing

Anonymous (anonymous@undisclosed.example.com) — 2018-02-19T08:06:13+00:00

2018/02/19 09:04		current
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	Links that don't have an article yet will be shown in red. This makes it easy for others to just start this article.		Links that don't have an article yet will be shown in red. This makes it easy for others to just start this article.

-	====== Most wanted pages ======	+	====== Most searched words ======
	~~SEARCHCLOUD~~		~~SEARCHCLOUD~~

exchange_dichroic_mt200

Anonymous (anonymous@undisclosed.example.com) — 2023-02-17T12:42:54+00:00

2021/06/25 11:19		current
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-		+	{{tag>howto MicroTime200 dichroic microscopy}}
-	{{tag>howto MicroTime200 dichroic microscopy MT200}}	+

	====== How to exchange the main dichroic of the MicroTime 200 ======		====== How to exchange the main dichroic of the MicroTime 200 ======

pycorrfit

Anonymous (anonymous@undisclosed.example.com) — 2016-03-07T11:00:06+00:00

2015/11/03 14:59		current
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	"[...] PyCorrFit is a general-purpose FCS evaluation software that, amongst other formats, supports the established Zeiss ConfoCor3 ~.fcs file format. PyCorrFit comes with several built-in model functions, covering a wide range of applications in standard confocal FCS. In addition, it contains equations dealing with different excitation geometries like total internal reflection (TIR)."		"[...] PyCorrFit is a general-purpose FCS evaluation software that, amongst other formats, supports the established Zeiss ConfoCor3 ~.fcs file format. PyCorrFit comes with several built-in model functions, covering a wide range of applications in standard confocal FCS. In addition, it contains equations dealing with different excitation geometries like total internal reflection (TIR)."

-	[[http://paulmueller.github.io/PyCorrFit/]]	+	[[http://pycorrfit.craban.de/]]

	GitHub:[[https://github.com/paulmueller/PyCorrFit]]		GitHub:[[https://github.com/paulmueller/PyCorrFit]]

supported_th260_pc

Anonymous (anonymous@undisclosed.example.com) — 2017-09-20T15:42:57+00:00

2017/07/24 10:03		current
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		+	/*
	{{tag> PC TH260 Harps TCSPC}}		{{tag> PC TH260 Harps TCSPC}}
	~~TOC~~		~~TOC~~
Line 37:		Line 38:
	\|HP ENVY 700-056 \|AMD A75 FCH\| \|		\|HP ENVY 700-056 \|AMD A75 FCH\| \|
	\|Dell Precision T3400 \|Intel X38 \| Installed in SLOT 3 , PCIe 8x(4,1)\|		\|Dell Precision T3400 \|Intel X38 \| Installed in SLOT 3 , PCIe 8x(4,1)\|
		+	\|Dell Optiplex 990 \|Intel X38 \| PCIe 8x \| /* See ticket 828080*\

	===== not-working mainboards / computer =====		===== not-working mainboards / computer =====
Line 48:		Line 50:
	\|HP 200-G1 (Model L5L54US#ABA) \| \| \|		\|HP 200-G1 (Model L5L54US#ABA) \| \| \|
	\|Lenovo ThinkServer TS140 \| \| \|		\|Lenovo ThinkServer TS140 \| \| \|
		+
		+	*/

asymptotic_standard_errors

Anonymous (anonymous@undisclosed.example.com) — 2015-02-10T16:33:41+00:00

2014/04/09 22:41		current
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	The asymptotic standard errors (ASE) are used for analyzing fitting parameter error intervals. For illustration let's start at the best fit parameter set, which can be regarded as a single point in the parameter space. Now we remove the parameter for which we want to calculate the error intervals from this location, that is, we take a single step parallel to its parameter axis. We then calculate the reduced X<sup>2</sup> for this new paramter set. By iterating this procedure we get X<sup>2</sup> as a function of the parameter of interest. The intersection points of this function with a given X<sup>2</sup> confidence limit define the boundaries of the confidence interval of the parameter.		The asymptotic standard errors (ASE) are used for analyzing fitting parameter error intervals. For illustration let's start at the best fit parameter set, which can be regarded as a single point in the parameter space. Now we remove the parameter for which we want to calculate the error intervals from this location, that is, we take a single step parallel to its parameter axis. We then calculate the reduced X<sup>2</sup> for this new paramter set. By iterating this procedure we get X<sup>2</sup> as a function of the parameter of interest. The intersection points of this function with a given X<sup>2</sup> confidence limit define the boundaries of the confidence interval of the parameter.

-	At PQ the asymptotic standard errors are supported by [[products:FluoFit]] and the [[products:SymPhoTime]] software.	+	At PQ the asymptotic standard errors are supported by [[software:FluoFit]] and the [[software:SymPhoTime]] software.

bootstrap

Anonymous (anonymous@undisclosed.example.com) — 2014-01-21T16:41:23+00:00

2014/01/21 17:41		current
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	Specifically, the bootstrap analysis takes a subset of N randomly chosen points out of the experimental data set, which itself consists of N data points. Since the points are chosen randomly, some of the points will be selected more than once; others will not be selected at all. Thus the 'simulated' data set is not identical to the original one, while the statistical properties of the original data set are maintained (since the number of data points remains the same).		Specifically, the bootstrap analysis takes a subset of N randomly chosen points out of the experimental data set, which itself consists of N data points. Since the points are chosen randomly, some of the points will be selected more than once; others will not be selected at all. Thus the 'simulated' data set is not identical to the original one, while the statistical properties of the original data set are maintained (since the number of data points remains the same).
-
-	At PQ the bootstrap method is exclusively used in [[FluoFit]]. For ensemble fitting as in [[FLIM]] it is -alas!- way too slow.
-

	===== Advantages and disadvantages =====		===== Advantages and disadvantages =====

tttr

Anonymous (anonymous@undisclosed.example.com) — 2015-02-10T16:42:50+00:00

2015/02/10 17:42		current
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	The [[Products:TimeHarp 200]] (also the [[Products:TimeHarp 100]]), the [[Products:PicoHarp 300]] [[Products:HydraHarp 400]] support TTTR mode measurements. With the the [[Products:PicoHarp 300]] a slight shift in the nomenclature was introduced. Due to its capability of simultaneously recording both signal inputs (in interactive mode used as 'Start' and 'Stop') as two separate TTTR traces with a time resolution of 4ps, a new TTTR mode was introduced, the so called T2-mode. The traditional recording as with the [[Products:TimeHarp 200]] / [[Products:TimeHarp 100]] is called [[T3-mode]]. In [[T2-mode]] both signal inputs are functionally identical.		The [[Products:TimeHarp 200]] (also the [[Products:TimeHarp 100]]), the [[Products:PicoHarp 300]] [[Products:HydraHarp 400]] support TTTR mode measurements. With the the [[Products:PicoHarp 300]] a slight shift in the nomenclature was introduced. Due to its capability of simultaneously recording both signal inputs (in interactive mode used as 'Start' and 'Stop') as two separate TTTR traces with a time resolution of 4ps, a new TTTR mode was introduced, the so called T2-mode. The traditional recording as with the [[Products:TimeHarp 200]] / [[Products:TimeHarp 100]] is called [[T3-mode]]. In [[T2-mode]] both signal inputs are functionally identical.

-	Today recording of [[glossary:T3-mode]] and T2 mode files is possible with all recent PicoQuant TCSPC devices ([[Products:TimeHarp 260]], [[Products:PicoHarp 300]] and [[Products:HydraHarp 400]] and their included software, analysis is supported mainly by the [[software:SymPhoTime]] software package.	+	Today recording of [[glossary:T3-mode]] and [[glossary:T2-mode]] files is possible with all recent PicoQuant TCSPC devices ([[Products:TimeHarp 260]], [[Products:PicoHarp 300]] and [[Products:HydraHarp 400]] and their included software, analysis is supported mainly by the [[software:SymPhoTime]] software package.

	Due to its capability of including external TTL pulses as markers in the stream of photon events TTTR mode is suitable for [[FLIM]] measurements. The markers are used to synchronise the photon events with a scanning process allowing to sort the photons into image pixels.		Due to its capability of including external TTL pulses as markers in the stream of photon events TTTR mode is suitable for [[FLIM]] measurements. The markers are used to synchronise the photon events with a scanning process allowing to sort the photons into image pixels.

start

Anonymous (anonymous@undisclosed.example.com) — 2026-02-11T14:19:03+00:00

2024/12/19 16:57		current
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	{{topic>howto -FT300 -sample -analysis -draft &nodate&nouser}}		{{topic>howto -FT300 -sample -analysis -draft &nodate&nouser}}

-	===== NovaFLIM / Analysis =====
-
-	{{topic>howto +tutorial +novaflim -draft &nodate&nouser}}

	===== SymPhoTime64 / Analysis =====		===== SymPhoTime64 / Analysis =====

easytau

Anonymous (anonymous@undisclosed.example.com) — 2016-03-01T09:41:03+00:00

2016/03/01 10:40		current
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	The easiest way to start with scripting measurements in EasyTau is to acquire a measurement with a wizard and then create a script from this measurement.		The easiest way to start with scripting measurements in EasyTau is to acquire a measurement with a wizard and then create a script from this measurement.

-	- Create a data set using a wizard of your choice	+	* Create a data set using a wizard of your choice
-	- Right click on the data set	+	* Right click on the data set
-	- Select ''Transfer script to customised mode, script page''	+	* Select ''Transfer script to customised mode, script page''
	{{ :software:create_script.png?600 \|}}		{{ :software:create_script.png?600 \|}}
-	- Adjust to your liking	+	* Adjust to your liking

dokuwiki

Anonymous (anonymous@undisclosed.example.com) — 2026-04-23T08:17:27+00:00

2026/04/23 20:36	current
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	+	====== DokuWiki ======
	+
	+	[[doku>wiki:dokuwiki\|{{wiki:dokuwiki-128.png }}]] DokuWiki is a simple to use and highly versatile Open Source [[wp>wiki]] software that doesn't require a database. It is loved by users for its clean and readable [[wiki:syntax]]. The ease of maintenance, backup and integration makes it an administrator's favorite. Built in [[doku>acl\|access controls]] and [[doku>auth\|authentication connectors]] make DokuWiki especially useful in the enterprise context and the large number of [[doku>plugins]] contributed by its vibrant community allow for a broad range of use cases beyond a traditional wiki.
	+
	+	Read the [[doku>manual\|DokuWiki Manual]] to unleash the full power of DokuWiki.
	+
	+	===== Download =====
	+
	+	DokuWiki is available at https://download.dokuwiki.org/
	+
	+
	+	===== Read More =====
	+
	+	All documentation and additional information besides the [[syntax\|syntax description]] is maintained in the DokuWiki at [[doku>\|www.dokuwiki.org]].
	+
	+	About DokuWiki
	+
	+	* [[doku>features\|A feature list]] :!:
	+	* [[doku>users\|Happy Users]]
	+	* [[doku>press\|Who wrote about it]]
	+	* [[doku>blogroll\|What Bloggers think]]
	+	* [[https://www.wikimatrix.org/show/DokuWiki\|Compare it with other wiki software]]
	+
	+	Installing DokuWiki
	+
	+	* [[doku>requirements\|System Requirements]]
	+	* [[https://download.dokuwiki.org/\|Download DokuWiki]] :!:
	+	* [[doku>changes\|Change Log]]
	+	* [[doku>Install\|How to install or upgrade]] :!:
	+	* [[doku>config\|Configuration]]
	+
	+	Using DokuWiki
	+
	+	* [[doku>syntax\|Wiki Syntax]]
	+	* [[doku>manual\|The manual]] :!:
	+	* [[doku>FAQ\|Frequently Asked Questions (FAQ)]]
	+	* [[doku>glossary\|Glossary]]
	+
	+	Customizing DokuWiki
	+
	+	* [[doku>tips\|Tips and Tricks]]
	+	* [[doku>Template\|How to create and use templates]]
	+	* [[doku>plugins\|Installing plugins]]
	+	* [[doku>development\|Development Resources]]
	+
	+	DokuWiki Feedback and Community
	+
	+	* [[doku>newsletter\|Subscribe to the newsletter]] :!:
	+	* [[doku>mailinglist\|Join the mailing list]]
	+	* [[https://forum.dokuwiki.org\|Check out the user forum]]
	+	* [[doku>irc\|Talk to other users in the IRC channel]]
	+	* [[https://github.com/splitbrain/dokuwiki/issues\|Submit bugs and feature wishes]]
	+	* [[doku>thanks\|Some humble thanks]]
	+
	+
	+	===== Copyright =====
	+
	+	2004-2020 (c) Andreas Gohr <andi@splitbrain.org>((Please do not contact me for help and support -- use the [[doku>mailinglist]] or [[https://forum.dokuwiki.org\|forum]] instead)) and the DokuWiki Community
	+
	+	The DokuWiki engine is licensed under [[https://www.gnu.org/licenses/gpl.html\|GNU General Public License]] Version 2. If you use DokuWiki in your company, consider [[doku>donate\|donating]] a few bucks ;-).
	+
	+	Not sure what this means? See the [[doku>faq:license\|FAQ on the Licenses]].

2026/04/23 20:36	current
Line 1:	Line 1:
	+	====== DokuWiki ======
	+
	+	[[doku>wiki:dokuwiki\|{{wiki:dokuwiki-128.png }}]] DokuWiki is a simple to use and highly versatile Open Source [[wp>wiki]] software that doesn't require a database. It is loved by users for its clean and readable [[wiki:syntax]]. The ease of maintenance, backup and integration makes it an administrator's favorite. Built in [[doku>acl\|access controls]] and [[doku>auth\|authentication connectors]] make DokuWiki especially useful in the enterprise context and the large number of [[doku>plugins]] contributed by its vibrant community allow for a broad range of use cases beyond a traditional wiki.
	+
	+	Read the [[doku>manual\|DokuWiki Manual]] to unleash the full power of DokuWiki.
	+
	+	===== Download =====
	+
	+	DokuWiki is available at https://download.dokuwiki.org/
	+
	+
	+	===== Read More =====
	+
	+	All documentation and additional information besides the [[syntax\|syntax description]] is maintained in the DokuWiki at [[doku>\|www.dokuwiki.org]].
	+
	+	About DokuWiki
	+
	+	* [[doku>features\|A feature list]] :!:
	+	* [[doku>users\|Happy Users]]
	+	* [[doku>press\|Who wrote about it]]
	+	* [[doku>blogroll\|What Bloggers think]]
	+	* [[https://www.wikimatrix.org/show/DokuWiki\|Compare it with other wiki software]]
	+
	+	Installing DokuWiki
	+
	+	* [[doku>requirements\|System Requirements]]
	+	* [[https://download.dokuwiki.org/\|Download DokuWiki]] :!:
	+	* [[doku>changes\|Change Log]]
	+	* [[doku>Install\|How to install or upgrade]] :!:
	+	* [[doku>config\|Configuration]]
	+
	+	Using DokuWiki
	+
	+	* [[doku>syntax\|Wiki Syntax]]
	+	* [[doku>manual\|The manual]] :!:
	+	* [[doku>FAQ\|Frequently Asked Questions (FAQ)]]
	+	* [[doku>glossary\|Glossary]]
	+
	+	Customizing DokuWiki
	+
	+	* [[doku>tips\|Tips and Tricks]]
	+	* [[doku>Template\|How to create and use templates]]
	+	* [[doku>plugins\|Installing plugins]]
	+	* [[doku>development\|Development Resources]]
	+
	+	DokuWiki Feedback and Community
	+
	+	* [[doku>newsletter\|Subscribe to the newsletter]] :!:
	+	* [[doku>mailinglist\|Join the mailing list]]
	+	* [[https://forum.dokuwiki.org\|Check out the user forum]]
	+	* [[doku>irc\|Talk to other users in the IRC channel]]
	+	* [[https://github.com/splitbrain/dokuwiki/issues\|Submit bugs and feature wishes]]
	+	* [[doku>thanks\|Some humble thanks]]
	+
	+
	+	===== Copyright =====
	+
	+	2004-2020 (c) Andreas Gohr <andi@splitbrain.org>((Please do not contact me for help and support -- use the [[doku>mailinglist]] or [[https://forum.dokuwiki.org\|forum]] instead)) and the DokuWiki Community
	+
	+	The DokuWiki engine is licensed under [[https://www.gnu.org/licenses/gpl.html\|GNU General Public License]] Version 2. If you use DokuWiki in your company, consider [[doku>donate\|donating]] a few bucks ;-).
	+
	+	Not sure what this means? See the [[doku>faq:license\|FAQ on the Licenses]].