flowCore | Core flow cytometry infrastructure | Theme library

 by   RGLab R Version: bioc_3.12 License: No License

kandi X-RAY | flowCore Summary

kandi X-RAY | flowCore Summary

flowCore is a R library typically used in User Interface, Theme applications. flowCore has no bugs, it has no vulnerabilities and it has low support. You can download it from GitHub.

Install the devtools package and then do devtools::install_github("RGLab/flowCore"). You may need to install other dependencies as well.
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              flowCore has a low active ecosystem.
              It has 38 star(s) with 22 fork(s). There are 12 watchers for this library.
              OutlinedDot
              It had no major release in the last 12 months.
              There are 14 open issues and 199 have been closed. On average issues are closed in 143 days. There are 2 open pull requests and 0 closed requests.
              It has a neutral sentiment in the developer community.
              The latest version of flowCore is bioc_3.12

            kandi-Quality Quality

              flowCore has 0 bugs and 0 code smells.

            kandi-Security Security

              flowCore has no vulnerabilities reported, and its dependent libraries have no vulnerabilities reported.
              flowCore code analysis shows 0 unresolved vulnerabilities.
              There are 0 security hotspots that need review.

            kandi-License License

              flowCore does not have a standard license declared.
              Check the repository for any license declaration and review the terms closely.
              OutlinedDot
              Without a license, all rights are reserved, and you cannot use the library in your applications.

            kandi-Reuse Reuse

              flowCore releases are available to install and integrate.
              It has 23924 lines of code, 0 functions and 133 files.
              It has low code complexity. Code complexity directly impacts maintainability of the code.

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            flowCore Key Features

            No Key Features are available at this moment for flowCore.

            flowCore Examples and Code Snippets

            No Code Snippets are available at this moment for flowCore.

            Community Discussions

            QUESTION

            how to mimic histogram plot from flowjo in R using flowCore?
            Asked 2021-May-18 at 09:27

            I'm new to flowCore + R. I would like to mimic a histogram plot after gating that can be manually done in FlowJo software. I got something similar but it doesn't look quite right because it is a "density" plot and is shifted. How can I get the x axis to shift over and look similar to how FlowJo outputs the plot? I tried reading this document but couldn't find a plot similar to the one in FlowJo: howtoflowcore Appreciate any guidance. Thanks.

            code snippet: ...

            ANSWER

            Answered 2021-May-18 at 09:27

            The reason that for the "shift" is that the x axis is logarithmic (base 10) in the flowJo graph. To achieve the same result in R, add

            Source https://stackoverflow.com/questions/67429156

            QUESTION

            setting x-limits on ggcyto plot doesn't seem to do the trick
            Asked 2021-Mar-24 at 15:45

            I am trying to set the x limits on a ggcyto(ggplot2) plot, but it doesn't seem to work. The x-limit that I set is squished all the way to the right and there is a lot of empty space. Not sure what else to try. I tried setting biexp scale but it looked the same.

            ...

            ANSWER

            Answered 2021-Mar-24 at 15:45

            Don't have your data so can't reproduce the weird axis. I would check your data for negative values. Also the ggcyto wrapper has some restrictions on your limits.

            Using an example data below, I set 2 values on the first column "FSC" to be -999, and I get a similar error:

            Source https://stackoverflow.com/questions/66775113

            QUESTION

            Removing S4 class column in R (flowCore)
            Asked 2020-Apr-16 at 10:48

            I work with the package flowCore found in Bioconductor, which reads my data files in an S4 class format. You can type library(flowCore) and then data(GvHD) which loads an example dataset. When you type GvHD you can see that this dataset is made out of 35 experiments, which can be accessed individually by typing for example GvHD[[1]].

            Now I am trying to delete two columns FSC-H and SSC-H from all the experiments, but I have been unsuccessful.

            I have tried myDataSet<- within(GvHD, rm("FSC-H","SSC-H")) but it doesn't work. I would greatly appreciate any help.

            ...

            ANSWER

            Answered 2020-Apr-15 at 07:15

            rm isn't meant for removing columns. The normal procedure is to assign NULL to that column:

            Source https://stackoverflow.com/questions/61220161

            QUESTION

            Add column to each data frame in a list based on a value in a separate list of objects
            Asked 2020-Feb-13 at 16:21

            I have a directory containing 28 FCS files (raw data from a flow cytometer). I am converting the list of 'flowFrame' objects into a list of data frames, and I would like to create a column in each data frame that refers to the file name.

            ...

            ANSWER

            Answered 2020-Feb-13 at 16:21

            If we need to get all the description, elements loop over the list with lapply/sapply/Map and use anonymous function call

            Source https://stackoverflow.com/questions/60211582

            Community Discussions, Code Snippets contain sources that include Stack Exchange Network

            Vulnerabilities

            No vulnerabilities reported

            Install flowCore

            You can download it from GitHub.

            Support

            For any new features, suggestions and bugs create an issue on GitHub. If you have any questions check and ask questions on community page Stack Overflow .
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          • HTTPS

            https://github.com/RGLab/flowCore.git

          • CLI

            gh repo clone RGLab/flowCore

          • sshUrl

            git@github.com:RGLab/flowCore.git

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