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- symphotime_tips_and_tricks @howto
- ype Overview ===== ^Workspace: may contain these Filetypes ^ Content of the file ^ How to get such a file in the workspace ^ How to open/process^ |''.ptu''... ==== * double click on any ''.ptu'' (raw data) file opens a file viewer, in which you find information about the file type and acquisition settings <imgcaption image1... e result of a particular analysis script. Result files also contain a comment which can be displayed via the file menu: **File → Show Comment**. {{show_comment.png|}} Typica... Images can be drawn in 3 ways (for this, open the file ''FLIM_3_expon.pqres'', associated to the raw data file ''DaisyPollen_cells_FLIM.ptu'') * toggling betw
- syntax @wiki
- eo has started. That image needs to have the same filename as the video and be either a jpg or png file. In the example above a ''video.jpg'' file would work. ===== Lists ===== Dokuwiki supports... needs to be added to the [[doku>entities|pattern file]]. There are three exceptions which do not come from that pattern file: multiplication entity (640x480), 'single' and "d... ples) or by using the tags ''%%<code>%%'' or ''%%<file>%%''. This is text is indented by two spaces.
- lifetime_fitting_using_the_tcpsc_fitting_script @howto
- marked in green, indicating that it is the active file. Under decay data all files are listed, the active file is always highlighted in green. **Note:** The file ''Cy5_diff_IRF+FLCS-pattern.ptu'' contains a lifeti... 0 }} **Response:** A window opens and asks for a file name and a folder to store the data, e.g. as ''fi... psc_fitting_script_Image_22.png }} * Store the file. You can open the data e.g. with the notepad func
- software
- /ChrisHal/PTU2BIN]] Tool to convert PicoQuant PTU filesto BIN files or IgorPro binary wave files (IBW) * [[https://de.mathworks.com/matlabcen... n Microscopy's BioFormat** supports PicoQuant bin files ([[glossary:pre-histogrammed_image|pre-histogrammed Image Data File]]) [[https://www.openmicroscopy.org/site/support/... tiChannel script is one can proccess multiple PTU files or a folder with PTU files and get a series Fluorescent multicolor images w... image and metadata from PicoQuant PTU and related files: PHU, PCK, PCO, PFS, PUS, and PQRES. PTU files contain time correlated single photon counting (
- data_file_import @howto
- reateopen.png | File menu }} Then select Import Files. A new dialog opens, where the data file is selected: {{ :howto:et2_fileimport.png | Selects the file to be imported }} The file selected above is a sample data file, ''Decay_Coumarin_6.phu'' installed during the installation of the [[https:... y measurement are stored in two separate ''.phu'' files. This is no problem, but then the file import procedure has to be repeated for each file
- calculate_ratiometric_single_pair_fret_distributions_using_the_pie-fret_script @howto
- et_script_Image_14.png }} **Response:** A result file (''PIE_FRET_TimeTrace_1.pqres'') is stored under the raw data file (''Cy3+Cy5_diff_PIE-FRET.ptu''). {{ calculate_rat... mage_15.png }} * Later, clicking on the result file reopens the file in the same way as it was stored. * Now the nec... e used automatically also for procession of other files, click "File" -> "Save Defaults". {{ calculate_ratiometric_sin... nse:** A window opens to select the user settings file. Select the recently stored file. {{ calculate_ratiometric_single_pair_fret_distri
- separation_of_2_species_with @howto
- r its contents, we rename it: ''Cy5-FLCS.pqres''. Files can be renamed by clicking slowly twice onto the file name and typing in the new name. {{ separation_of... ts contents, rename it as ''ATTO655-FLCS.pqres''. Files can be renamed by clicking slowly twice onto the file name and typing in the new name. {{ separation_of... result" to save this curve. Rename the generated file as "Cy5-FLCS". * These curves can now be fitted
- calculate_ratiometric_single_pair_fret_distributions @howto
- ributions_Image_13.png }} **Response:** A result file (''FRET_TimeTrace_1.pqres'') is stored under the raw data file (''Cy3+Cy5_diff_PIE-FRET.ptu''). {{ calculate_rat... mage_14.png }} * Later, clicking on the result file reopens the file in the same way as it was stored. * Now the nec... e used automatically also for procession of other files, click "File" -> "Save Defaults". {{ calculate_ratiometric_sin... nse:** A window opens to select the user settings file. Select the recently stored file. {{ calculate_ratiometric_single_pair_fret_distri
- visualizing_dynamics_using_the_multiframe-flim_script @howto
- image. - 1x1 bitmap exports the image as a bmp file with one pixel of the image being exported as one pixel in the image file. In the other bitmap export options, the image is... IN exports the image series as a series of binary files. The data format of these files is described on the SymPhoTime Online help. The ... Save Results".\\ **Response:**\\ A result file is generated which is assigned to the raw data file. Double click on this ''.pqres''-file opens it in the same way as it was stored.
- roi_fitting_using_the_flim_script @howto
- mage.\\ **1x1 bitmap** exports the image as a bmp file with one pixel of the image being exported as one pixel in the image file. In the other bitmap export options, the image is... 00 }} **Response:** A window opens, asking for a file name to store the fitting values. The data are stored as a ''.dat'' file. {{ roi_fitting_using_the_flim_script_Image_26.pn... Image_28.png?241 }} **Response:**\\ * A result file (''FLIM.pqres'') is stored under the raw data file (''DaisyPollen_FLIM.ptu''). {{ roi_fitting_using_... mage_29.png }} * Later, clicking on the result file reopens the file in the same way as it was stored. **Note:**\\ Th
- flim_fret_calculation_for_multi_exponential_donors @howto
- esult_bearb.png?400 |}} **Response:**\\ A result file (''FLIM.pqres'') is stored under the raw data file (''CENP-labelled_cells_for_FRET.ptu''). {{ :howto... _donors_Image_44.png }} **Response:**\\ A result file is saved and linked to the raw data file. {{ :howto:flim-fret-multiexpd_pqres_2.png?400 |}
- using_the_flcs_script_for_spectral_crosstalk_removal_via_flccs @howto
- oval_via_flccs_Image_9.png?336 }} * Select the file ''IBA488_IBA547_unlinked_mix.ptu'' (the same file again) and click "OK". {{ using_the_flcs_script_f... **Response:** * The TCSPC histogram for this file appears in the "Pattern" graph in the upper cente... visible, as the pattern was created from the same file, which makes the fitting perfect. * Fitting v... the fluorescence decay is named according to the file (it corresponds to the filter for the pulsed exci
- calculate_fccs_trace_with_the_grouped_fcs_script @howto
- open the corresponding help page. The grouped FCS file can calculate and handle multiple FCS curves, either from different files or several correlations from one file, as used h... '. **Response:**\\ The correlation curves of this file are calculated. The cross-correlation amplitude of this file is ~20% of the autocorrelations. {{ calculate_fc
- using_the_anisotropy_image_script @howto
- ge_script_Image_16.png }} **Response:** A result file (''AnisotropyImage_1.pqres'') is stored under the raw data file (''Cy5_immo_FLIM_Po-Imaging.ptu''). {{ using_the_... mage_17.png }} * Later, clicking on the result file reopens the file in the same way as it was stored. \\ ==== Stor... nse:** A window opens to select the user settings file. Select the recently generated file. {{ using_the_anisotropy_image_script_Image_23.pn... now the "Anisotropy Imaging" script again on the file, the user defined G-factor and detector assignmen
- visualizing_dynamics_with_the_multi_frame_flim_analysis @howto
- mage.\\ **1x1 bitmap** exports the image as a bmp file with one pixel of the image being exported as one pixel in the image file. In the other bitmap export options, the image is... _dynamics_Image_18.png }} **Response:** A result file is generated which is assigned to the raw data file. Double click on this ''.pqres'' file opens it in the same way as it was stored. {{ visualizing_dynamic