FCSalyzer Activity
FCSalyzer is a free program for analysing flow cytometry data
Status: Alpha
Brought to you by:
sven_mostboeck
Activity for FCSalyzer
-
Sven Mostböck posted a comment on discussion Support
Hi Beel, the labels disappear if there is more than one possible label. So on the y-axis the label disappears in overlays that are scaled to maximum (like in your example) because the different graphs that are overlaid have different event counts to reach this maximum. Take a look at the single plots - which event counts are shown? If one plot has 10 000 events on the y-axos, the second has 8 000 and the third has 9 000, then there is no "correct" event count to use, so it disappears. If the histograms...
-
Beel posted a comment on discussion Support
Why does the scale of the Y-axis disappear when I want to do the overlay? And also for the X-axis, the title 'PE-A' suddenly disappeared when doing the overlay (The blue one, upper), unlike the APC one below (red). Any solution for these problems? Thank you.
-
Hi, I just tried it on my computer with the latest version 0.9.22 and it works for me. Please see the attached image, which shows the dialog as it looks for me. So right now I can't say what the problem might be. Can you please describe it in more detail, and possible add a screenshot and example data? Thanks, Sven
-
Hi, I just tried it on my computer with the latest version 0.9.22 and it works for me. Please see the attached image, which shows the dialog as it looks for me. So right now I can't say what the problem might be. Can you please describe it in more detail, and possible add a screenshot and example data? Thanks, Svev
-
Anonymous posted a comment on discussion Support
hello, could someone help me with deriving my parameter? i cant divide its not giving me 2 boxen but only one
-
FCX files are FCSalyzers internal documents for analysis. Into these documents, plots are based that display the data of selected FCS files. Please read the Wiki and watch the tutorial videos: https://youtu.be/h8LTHK26lHM
-
Hello, does anyone can help me? I can't open my FCS files even though the option is FCS document. It only allowed for FCX files.
-
Hi Scott, unfortunately that is not currently possible (neither of the two options you suggested). I can put in on my ToDo, but as you can see from the releases, I somehow never get around to actually implement changes. Sorry and I hope that you can still get some use out of FCSalyzer. Best regards, Sven
-
Anonymous posted a comment on discussion Contact the author
Dear Sven - Thanks for the super-fast response, and I of course understand that for privately-written software it's not reasonable to expect modifications for every request. I really just wanted to put in a suggestion so that if ever an update comes along, you'd have it in mind (and to try to explain it in a way that could be conducive to easy implementation). We'll give the 'batch mode' another try, as you suggest. The main reason that we don't use it is that it's very useful to be able to visualise...
-
scottbecker posted a comment on discussion Support
Our machine's software (guava incyte) puts the sample decriptions inside the keyword GTI$SAMPLEID. Is there a way to set this as our "sample descr" to be used in statistics for plots? Or, alternatively, is there a way to include this extra keyword with statistics? (We can put the keyword in annotations, which is nice, but we want it also associated with our statistics).
-
Dear Giovanna, I don't quite understand the question. What do you mean with " some ive results in mean or median calculation"? Thanks, Sven
-
Anonymous posted a comment on discussion Support
Hi I am Giovanna and we are tryng to use FCSalyzer for BioRad S3 data. with biparametric fluorescence data (Green and Red, ie JC1 fluorescence or DiClorofluorescein /PI fluorescences) when we perform statistic, we found some ive results in mean or median calculation. We don't undersatand why and How it is possible...I wait for your response, my best regards Giovanna
-
Hi Ethan, thanks, this is another example that tells me I should do something about the axis limits. Your plot is interesting, as it seems that that FCS file mentions a range of 0-10000, but actually records the data only up to a little more than 4000 (probably 4096). Say, could you maybe share an example file for me for taking a look at it? Thanks, Sven
-
Anonymous posted a comment on discussion Support
Thank you Sven, I have the same request with others. My data is not fit into the default axises scale. This the quick look. https://imgur.com/a/0sbPNL8 Hope you can release an update that support customizing the axis range. Best Ethan
-
Hi Dominic, it is nice to hear that FCSalyzer is of use to you! I just gave it a try and I can see what you mean. Here a few comments: 1) Yes, I see that this is annoying when analysing a lot of different files. Yes, your suggestions are reasonable and should not be too difficult to implement. However, as you can see from the releases, development has slowed down horribly in the last few years. The reason is mainly that other activities have taken up a lot of my private time. I really must kick myself...
-
Anonymous posted a comment on discussion Contact the author
Dear Sven, Our lab has been using FCSalyzer a lot for the last couple of years, and we're largely very happy with it. Thankyou again! I realise of course that it's a 'hobby' program, but anyway I hope it's Ok to propose a couple of very small feature suggestions that repeatedly come up, and to try to frame them in a hopefully-easy-to-implement way. We routinely analyse a large number of samples together in the same FCSalyzer document, so that we can apply identical gating and export statistics that...
-
Anonymous posted a comment on discussion Support
Thank you!!!! I went the back to the machine and exported the files selecting only the parameters I was using during the acquisition. Best wishes, Simona
-
Hi Simona, I see a few options: 1) recommended solution: make a separate analysis for each experiment. If I understand you right, these were different data sets from separate experiments, probably performed on different days, maybe even on different FACS machines. I think the best way is to simply analyse them separately (using the same gating strategy). FACS data will differ from experiment to experiment, simply because of variability due to variations in performing the experiment and acquiring...
-
Anonymous posted a comment on discussion Support
Thank you Sven. Would be better for me to go back and check the data saved in the machine? Is there no solution for my problem? Many thanks. Simona
-
Hi Simona, no, it is not possible to change the parameter order. That order is always taken as it is in the FCS datafile. Best regards, Sven
-
Anonymous posted a comment on discussion Support
Hi Sven Thank you for your swift reply. You confirmed my suspicion, i.e. the parameter order was not consistent across files. Is there a way to change the parameter order and re-synchronise it across my files? Best regards, Simona
-
Hi Simona, the parameters in a FCS file are stored as P1, P2, P3 and so forth, with each parameter having a name/label, for example "SSC". FCSalyzer uses the parameter number internally to keep track of the parameters, but shows the parameter name to the user, as this is the way it is usually done by analysis software. Usually, all FCS files in an experiment use the same parameter labels and parameter order. In your case, it sounds like the paramter order is not the same between the different files...
-
Anonymous posted a comment on discussion Support
Hi! I am a new user. I managed to analyse my control and saved the gates and stats. I work with SSCA-A on the Y axis and FSC-A on the X axis. I tried to "load" another data set on the dot plot of the ctrl, but the programme shows different parameters and when I try to select the right ones the gate disappear. Is there something wrong with what I am doing? Is something that I need to check in the file of the other data set? Many thanks. Simona
-
Hi, Do you use the newest version, 0.9.22? It seems to me that you might have downloaded an old version that does not yet havwe the export function implemented. It is available in 0.9.22, see attached screenshot. An no, unfortunately it is not possible to change the axis range or labeling. Best regards, Sven
-
Anonymous posted a comment on discussion Support
Hi! I've enjoyed this software, thank you for developing it! I'm learning about this through youtube tutorials But the problem is that I can't find the option for "Export Ploy/Overlay to PNG, data, statistics" (Even I clicked the Plot tab, it wasn't there) Is there a way to fix this problem? I also wanted to change the intervals in axis to avoid the overlapped intervals Is there a way to change the range of intervals or extend it?
-
Home
-
Home
-
Home
-
Home
-
Home
-
Home
-
AttachParameters
-
Document
-
AttachParameters
-
Statistics
-
AttachParameters
-
AttachParameters
-
Document
-
It will get onto my todo ...
-
Anonymous posted a comment on discussion Support
I'll maybe write a FCS anonymizer app in C# with drag and drop functionality - this should do the trick ;) Greetings from Vienna! Georg
-
Anonymous posted a comment on discussion Support
I'd have two more suggestions for your todo-list ;), which might be easy to implement: - snap to (invisible) grid when creating new plots (e.g. 10px increment), to easily achieve plots of equal size and aspect ratio - highlight functionality for gates / regions (double pixel size) to enhance the visibility of small populations Thanks again! Best regards, Georg
-
Ah, now I understand the problem - patient names, you want to anonymize those of course! I had not considered that use case. The exported graphs could be edited after export, of yourse, but that is cumbersome ...
-
Hi Georg, renaming the files might not work. There is the filename of the system, which you can rename, but there is also the internal filename, as recorded during acquisition; it is saved as a keyword $FIL inside the FCS file. And I think that is the one I used for the plot title ... Hm, I am wondering: can this be changed in the "Data File Parameter" dialog, where you can rename the labels for FL-1 etc? You see, I can't even fully remember the usage of the program any longer :-D Yes, I will add...
-
Anonymous posted a comment on discussion Support
Hi Sven, Thank you very much for your prompt reply and your amazing work! Unfortunately annotations and legends, although very useful, do not cover or overwrite the plot title. I will rename the FCS files (currently patient names) to something like "case 01",... - this should do the trick for now. Should you ever think about a little update though, the possibility to edit the plot titles would be a great feature ;) I can fully understand that it is hard to find spare time for coding. I have lots...
-
Hi Georg, no, this is currently not supported. You could make an annotation or legend to the plot to show such information, maybe that would work for you? Thanks for the positive feedback. Unfortunately the last update has been some time ago - 2 years ago I just realized! That is sad, I have to free up some time to work on it. Anyways, best regards, Sven
-
Anonymous posted a comment on discussion Support
Is there a possibility to change the plot title? By default the title equals the name of the FCS file, but I’d rather leave it blank or have the option to enter a custom string, or show the name of the region/gate applied to an individual plot. Thank you very much! FCSalyzer is really awesome and very useful! Georg
-
Hello, please post all questions about FCSalyzer simply right here in the forum Regards, Sven
-
Anonymous posted a comment on discussion Contact the author
Hello, I would like to be sure that your email address is active, please confirm if you receive my message, here in is my private email address: ashrafrahim@uaeplawfirm.com Please respond as soon as possible and have a great day and stay safe. Thanks, Truly Yours, Dr Ashraf Rahim. Email: ashrafrahim@uaeplawfirm.com
-
Anonymous posted a comment on discussion Support
Hie Sven "so Novocyte FCS files have different ranges within one experiment? OK, I was not aware that this can happen for some machines." => Egal, I was very disapoited when I try to analyze ;) I tryed to join the files in withe the image but it doesn't pass, I'll try again or send by other way. Thanks a lot I realy like your software, litle, simple, usefull and can read my data. Unfortunatly Y have too strange file description best regards pierre
-
Hi Pierre, so Novocyte FCS files have different ranges within one experiment? OK, I was not aware that this can happen for some machines. Currently there is no way to manually change the range, sorry. I plan to work more on the program this winter. There are a number of things I want to improve, and I can add an option to pre-set the range. However, this will take some time, it is not a quick fix. Say, could you maybe upload two FCS files with different ranges, so I have some test cases? Thanks,...
-
Anonymous posted a comment on discussion Support
Hie I find very use full your FCSalyzer software. unfortunatly I work on a Novocyte and the FCS files exported Have not the same range. Values are similar but range not so when I dotplot for gating the gate stay but the scale move so I can't select the good populations. I try the altenative 0.9.22-alpha but i doesn't do this job also if I plot overlay. Is there a solution to use whole range for whole files ? the atter exist on serval mesure :FSC/SSC PE/APC and FITC/PE-Cy7 for example to file nearly...
-
Do you mean the y-axis on histograms? It depends on the scaling of the y-axis. Usually, histograms are scaled so that the peak channel "fills" the y-axis - this is called "Local maximum". If there is only one overlay, FCSalyzer can then print the event-count for this channel on the y-axis. However, if there are two datasets are shown as overlays, they have different event counts for the peak channel. Hence, the y-axis is empty, because there is no correct value for it. Use "Global Maximum" or "Manual...
-
Anonymous posted a comment on discussion Contact the author
I can't see event count when two or more .fcs files re plotted together as overlay. any solution?
-
Great! Let me know if you run into any problems. Regards, Sven
-
Anonymous posted a comment on discussion Contact the author
Dear Sven, Thank you for your reply! I hope you've had a nice vacation. It is good to know that FCX file is written in XML (I should have checked that)! Now I can do what I want to do and I love FCSalyzer even more. Best, Max
-
Hi, sorry for the late reply - this post somehow ended up as spam and I missed it. No, currently there is no histogram smoothing implemented in FCSalyzer. I never liked smoothing ... Best regards, Sven
-
Dear Max, sorry for the late reply - Easter vacation :-) Currently itt is not possible to define object sizes directly in FCSalyzer. A possible work-around could be to edit the .FCX file directly. This is simply a text-based XML file, and the size of each plot is stored as the parameters "Width" and "Height", in pixel. Please use only full numbers, such as "100.0", but not "100.4". It is great that FCSalyzer is of help to you. I do plan to continue with it, but time is short, unfortunately. Regards,...
-
Anonymous posted a comment on discussion Contact the author
HI Is there some way of smoothening a histogram plot like we do on FlowJo? Thanks Jay Jayakumar R. Nair, PhD Scientist/Biologist Women Malignancies branch / NCI/NIH Building 10, Room 6B12 10 Center dr, Bethesda, MD 20892 Email: nairjr@nih.govnairjr@nih.gov Tel: 240-858-3284 Don't Panic! Stay calm and carry on - Douglas Adams.
-
Anonymous posted a comment on discussion Contact the author
Dear Sven, Is it possible to change the object (plot) size by entring numbers? What I want to is a popup window that I can enter the command "width=15, height=10" or something like that. I know that all selected objects are resized together by dragging, but it is difficult to set plots from different Documents in the same size. I am sorry if this feature or alternative similar features are already implemented. By the way, I love FCSalyzer. Thank you for your help. Best, Max
-
Postglock posted a comment on discussion Support
Why do you have such a low voltage on the SSC detector? You may well be correct, and honestly, I'm not sure! If it is a low-voltage issue, I guess it just from the poor template on the machine I was using. Unfortunately the software on the machine is so old and unwieldy it's pretty hard to change the settings easily. I might investigate further next time I run it. What's weird is it looks fine on the machine's software from memory. Status: FCSalyzer is a hobby project of mine. That's great. Thank...
-
Unfortunately I do not see a work-around for your problem currently. I am surprised about your setup. In my understanding, the machine settings are usually set in such a way that the relevant populations are clearly "visible" in the plots. Why do you have such a low voltage on the SSC detector? The data export is rather simple currently. During each batch step, it appends the data to the existing CSV. Your suggestion of a combined table (with additional column(s) identifying the respective datafile)...
-
Thanks again Sven. 1 and 2 make sense. I agree with your suggestions too. If there were default analyses (including axes limits) and a layout setup, that would likely solve all these issues. 3) Yes, I still meant the parameter multiplication here. I love the concept of the batch output, and I think it makes FCSalyzer extremely powerful. On a related topic, I realised earlier that when exporting as a single file, it is in a slightly fiddly format . It would be great if it were a "simple" csv, i.e....
-
Thanks for the updates. 1) only datafiles that are actually used in the analysis, so are shown in plots, are saved with the analysis. This is by design. I thought it makes sense to remove datafile references if they are not actually used, instead of requiring access too a ton of files just because the user took a peek at them at some time during setting up the analysis. But true, you do lose all adjustments such as transformation etc that were made. I really need to include a default analysis setting....
-
No worries! Thank you for the explanation. I also had a couple of edits in my comment above that are likely "expected" given the current behaviour, but I just thought I'd mention them because I think I edited the comment after you posted here. I've also been experimenting with derived parameters instead of using the parameter multiplier. Again, I've had to use the overlay trick to get it applied to all the data files. Again, these appear to display fine, but when I export, I get the error: FCS file...
-
No worries! Thank you for the explanation. I also had a couple of edits in my comment above that are likely "expected" given the current behaviour, but I just thought I'd mention them because I think I edited the comment after you posted here. I've also been experimenting with derived parameters instead of using the parameter multiplier. Again, I've had to use the overlay trick to get it applied to all the data files. Again, these appear to display fine, but when I export, I get the error: FCS file...
-
No worries! Thank you for the explanation. I also had a couple of edits in my comment above that are likely "expected" given the current behaviour, but I just thought I'd mention them because I think I edited the comment after you posted here. I've also been experimenting with derived parameters instead of using the parameter multiplier. Again, I've had to use the overlay trick to get it applied to all the data files. Again, these appear to display fine, but when I export, I get the error: FCS file...
-
Thanks Sven. One other note, it seems that when you batch export, the parameter multipliers are not taken into account. To replicate: Use the parameter multipliers as a workaround to see the points more easily Create regions, quadrants, etc. The statistics appear to reflect this all correctly. Attempt to batch export. At this point, the graphs do cycle through the various files as expected, but the graphs are no longer transformed. The exported graphs and statistics reflect the un-transformed parameters....
-
Ah thanks for the info. This is an interesting situation that I did not test for. Short explanation: During batching, all datafiles are treated similarly as the "original" datafile that was used to set up the plot. Should one of these datafiles already exist in the analysis document, it would not (!) retain their specific settings when being cycled in the batch. This means that the same datafile could appear with two different transformations and/or compensations in the same analysis. I hope this...
-
Thanks Sven. One other note, it seems that when you batch export, the parameter multipliers are not taken into account. To replicate: Use the parameter multipliers as a workaround to see the points more easily Create regions, quadrants, etc. The statistics appear to reflect this all correctly. Attempt to batch export. At this point, the graphs do cycle through the various files as expected, but the graphs are no longer transformed. The exported graphs and statistics reflect the un-transformed parameters....
-
Thanks Sven. One other note, it seems that when you batch export, the parameter multipliers are not taken into account. To replicate: Use the parameter multipliers as a workaround to see the points more easily Create regions, quadrants, etc. The statistics appear to reflect this all correctly. Attempt to batch export. At this point, the graphs do cycle through the various files as expected, but the graphs are no longer transformed. The exported graphs and statistics reflect the un-transformed pa...
-
Sorry for the overload with the questions! And thank you again for the prompt and informative reply. That answers all my questions perfectly. Thank you!
-
Many questions in one post :-) 1) Regions, quadrants, histograms Quadrant and markers are used to identify relevant populations in a given plot. They work on a per-plot basis and are independent of each other. They are also independent on the parameters that are shown in the plot. They are used for statistical analysis for a given plot. Regions identify relevant populations for the whole analysis/document. One region applied to all datafiles and all plots. If a region is changed, this change applies...
-
That thought never crossed my mind . so right now, this is not possible. I will add it to my ToDo. Shouldn't be too difficult ti implement, but I always think that ....
-
Thanks for the feedback - it is good to hear that there is a need for FCSalyzer in the world :-) Cytoflow looked really good to me and given that it is based on Python I thought it would work well everywhere. So I guess I will continue with my Java Program. It is important to have different alternatives for the various needs.
-
Is it possible to use a log scale on the "Event count" axis of a histogram? In my attachment, the top row is the negative control, and the bottom is the sample. I have to use the 2D plot (left column) to determine where the threshold for detection is. I'd like to use the histogram (right column), but with a linear scale it's not possible to see any data points that are low abundance. (In this example they are 0.5%.) I'd also argue that log counts for events are usually more biologically interesting....
-
I have numerous FCS files spread across multiple directories. I originally wanted one set of plots in the first row, and the same set of plots duplicated in the second row. I could then compare between directories by cycling through samples in each row. Is it possible to copy regions/quadrants/markers from one plot to another? I know you can create a single plot with a region/quadrant/marker, then duplicate the plot, but if you want to change the position of the region/quadrant/marker in both plots...
-
Thanks Sven! FCSalyzer is a great program! AFAIK there are only three options on Linux. I've tested Cytoflow and FACSanadu, and both are clunky and (more importantly) crash regularly. FCSalyzer is by far the best FCS program on Linux! Thanks again for your help, and thanks for the overlay tip!
-
I see, OK. Hm, a "make default for this analysis" setting would be good. Also, axis-zooming must be the most-requested feature, I have gotten a lot of messages about it. I guess I really must get it into FCSalyzer somehow. There are a few issues that will cause problems (for example creating regions in a zoomed plot), I will have to think about it. I guess there won't be a perfect solution. I guess I will have to implement both, an axis-zooming for the datafile during transformation, and then an...
-
I'd love to adjust the scale/limits of the axes too. The transformations do help, but even if I select "Apply changes to all files", it only applies the changes to the files that have previously been opened in FCSalyzer. If I attempt to add new files, then they do not have the new transformation values. I have to re-transform every time I open a new file, or cycle through every single file I wish to analyse first to load them, then transform all of them after.
-
Hi, currently, it is not possible to edit the range of an axis, or to zoom into a plot. I am getting quite a lot of requests for it, so I guess I should have another look into implementing it for the next version. Best regards, Sven
-
Anonymous posted a comment on discussion Support
Hi. I would like to know how to edit the horizontal axis. Especially, the minimau values. How should I set the minimum and maximum values on the horizontal axis? For example, change 0-1000 to 25-2500. Best regards, HS
-
Anonymous posted a comment on discussion Support
Hi. I would like to know how to edit the horizontal axis. Especially, the minimau values. How should I set the minimum and maximum values on the horizontal axis? For example, change 0-1000 to 25-2500. Best regards, HS
-
Anonymous posted a comment on discussion Support
Hi. I would like to edit the range on the horizontal axis. I want to set the range go the horizontal axis to 25-250000, but the minimum value is 0 (1 in the case of log). What should I do ? Best regards. HS
-
Anonymous posted a comment on discussion Support
Thanks a lot again for the explanation. All that makes sense, and I kind-of assumed that reasons like those woule be the case (and that it was only the 'surprise' of data files with different ranges that caused the effect to appear). It seems pretty logical to me to use 'display' data to work with gates drawn on the displays, especially if the ranges shouldn't be different. And super-thanks for the 'special' 9.22! This goes well beyond the reasonable expectations from a self-described 'hobby programmer'...
-
Hi Dominic, first, attached please find a "special" version of 0.9.22 without the bug. I simply removed the quick check that I men tioned above. I hope that did not break anything else ;-) I thought it stupid that you have to tweak around now that one file in your analysis ... For displaying samples: the FCS raw data is taken, compensated, then transformed (log or logicle) and finally mapped from their original range to a range of 0-4095. The plots show these values then reduced to the pixel-size...
-
Anonymous posted a comment on discussion Support
Sven - Thanks very much for the explanation. Especially since it makes me more relaxed to do my dirty work-around of multiplying-up the FSC-A values to let them be analysed for this sample, at least until the next version of FCSalyzer! One other thing that I noticed that arisies from this is that after the dirty multiplying-up to put the displayed dots visually in the 'right' place, they now pass through the same gate as the other, un-multiplied samples, even though they now have FSC-A values that...
-
Hi Dominic, thanks for providing the report and especially the example data files. It took me a while and I had to dig deep into old sourc code I had not looked at in ages, but I found the reason. In short: the bug with the FSC-A in your datafile happened because I tried to repair a problem with another parameter in FSC datafiles. In long: the range of each parameter is defined in the $PnR parameter of the datafile (n being the number of the parameter). In your datafile, the measured parameters including...
-
Hi Dominic, thanks for providing the report and especially the example data files. It took me a while and I had to dig deep into old sourc code I had not looked at in ages, but I found the reason. In short: the bug with the FSC-A in your datafile happened because I tried to repair a problem with another parameter in FSC datafiles. In long: the range of each parameter is defined in the $PnR parameter of the datafile (n being the number of the parameter). In your datafile, the measured parameters including...
-
Anonymous posted a comment on discussion Support
Hello Sven, Thank you very much for your reply. It's awesome. I'm going to try it. You are totally right. We are so used to FlowJo, CellQuest, etc, that I assumed that FCSalyzer worked the same way. And thank you very much for creating this wonderful free software for flow cytometry. We really needed a free alternative. Best regards, JJ
-
Anonymous posted a comment on discussion Support
Thank you very much Sven. I'll check it! Best regards, JJ
-
Anonymous posted a comment on discussion Support
Dear Sven, I've acquired a set of 96 FCS3 files in batch mode (96 well plate) on a Beckman Coulter Cytoflex. Strangely, when I load these into FCSalyzer, one (and only one) of them displays the FSC-A parameter 'squashed-down' by about 3-fold. Looking closely, the FSC-A axis limits for this file only are much higher than the others (from zero to about 58000k, instead of from zero to about 16000k for all the others). Looking at some of the actual data (using the 'View File Data' menu), I see that the...
-
Hi JJ, please see my other response: make sure to generate a proper gate using a boolean gating strategy. here is a tutorial: https://youtu.be/RWIh2mgQCcM Regards, Sven
-
Hi JJ, Regions do not build a parent-child hierarchy in FCSalyzer. This id different from other analysis software, and reflects how the old CellQuest software worked. So even though the plot you used to draw R1 was gated on R0, a gate just using R1 will filter all events, without a pre-filtering by R0. You need to create a gate with a boolean strategy: "R0 and R1" That gate will filter the events using both regions. Please have a look at the tutorial: https://youtu.be/RWIh2mgQCcM Regards, Sven
-
Anonymous posted a comment on discussion Support
Hello, I created a region (R0) in a dot plot. Then I gated a second dot plot with the first region R0, and I created a second region called R1. Then I created histogram and I tried to apply the gate called R1, but it shows me the data for the full first dot plot. I'm clearly doing something wrong, but I don't know what. Any advice? Best, JJ
-
Anonymous posted a comment on discussion Support
Interesting! It's July 2021 and I have the same problem with the histogram. I gate a population of cells in a dotplot and when I want to do the histogram of just that population, the histogram plots the whole data set. Is this a bug or that I'm doing something wrong??? Thanks, JJ
-
Ah yes, that is the reason for the two versions - MacOS has problems with the Java-based file dialog. Maybe I should only continue with the "alternative" version and drop the other one? Might prevent some confusion :-) I will leave your comments here, as they might help other users. Thanks again! Sven
-
Anonymous posted a comment on discussion Contact the author
Well, this is embarassing. Everything installed & ran great (open files, make gates, analyse, export data) and I was happy and sent the positive report. But now I tried to 'save' (or 'save as') and ran-across a problem: Dialog: 'Select FCSalyzer file to save' <list of="" files="" to="" select=""> Pull-down menu: 'File format': 'FCSalyzer document' Buttons: 'Cancel' and 'Open'. As I do not already have an FCSalyzer document, I cannot open anything, and anyway I wanted to save, not open.... </list>...
-
Anonymous posted a comment on discussion Contact the author
Please ignore my previous comment: The 'save' and 'save as' functions work fine on 'FCSalyzer_alternative.jar'.
-
Hi Dominic, thank you for your report! It is good to hear that FCSalyzer can run on the new MacOS and the new chip. This is very helpful information! Best regards, Sven
1 >