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Merging Multiple Samples #56

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GuoLabUCSD opened this issue Jun 9, 2023 · 2 comments
Open

Merging Multiple Samples #56

GuoLabUCSD opened this issue Jun 9, 2023 · 2 comments

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@GuoLabUCSD
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GuoLabUCSD commented Jun 9, 2023 •
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Dear C. Mertes,

I would like to run FRASER on a dataset of 47 BAM files. However, when running the countRNAData function I keep getting out of memory errors. Is it possible to run fds <- countRNAData(createTestFraserSettings()) on each sample individually, and then merge the resulting fds objects? If not, do you know how I can best get around this issue? Thanks in advance!
@vyepez88
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vyepez88 commented Apr 2, 2024

Hi, you would have to run it in a cluster. You can count one sample at a time if needed.

@tbrittoborges
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Hi @vyepez88, after using countRNAData for each individual sample, how should we merge the individual samples before calculatePSIValues (#94)?

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@tbrittoborges @vyepez88 @GuoLabUCSD