cell ranger tool
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4.4 years ago
kanwarjag ★ 1.2k

I saw Seurat under R- Shinny as GUI version and was wondering if there is Cell ranger pipeline under GUI that can be used by a person with little programing background.

RNA-Seq • 1.0k views
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I don't think there is a GUI available for Cellranger pipeline. The command-line version is very easy to run and well documented in 10x support forum.

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Cell Ranger is fairly computationally intensive. Depending on the resources you have available, it can easily take over a day to run. It usually does not make sense to have a GUI for such long-running processes.

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4.4 years ago

No there is currently no GUI's available for Cellranger. But you can write a bash script for easy usage. Or maybe a notebook to explain each command and the variables.

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