ChIPpeakAnno can not load data
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文杰 • 0
@a4dfd057
Last seen 11 weeks ago
Taiwan
>macs_peak <- system.file("extdata", 'H820_OsiR_1_peaks.xls', package = "ChIPpeakAnno")`
> macs_peak

[1] ""

> macs_peak_gr <- toGRanges(macs_peak, format = "MACS")
Error in read.table(data, header = header, comment.char = comment.char,  :

system.file can not work

genomes ChIPpeakAnno • 413 views
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Where is there a reference to this file? Indeed this file does not exist in this package.

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hukai916 ▴ 10
@e84eaed3
Last seen 9 weeks ago
United States

ChIPpeakAnno stores several example files under its extdata directory for demonstration purposes. These files can be found with the system.file() function. That being said, if the file (e.g. "H820_OsiR_1_peaks.xls") is not pre-existing in the package, system.file() will not find it. A side note, you have an extra backtick ("`") at the end of your first commend.

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@152d0fce
Last seen 24 days ago
Vietnam

Ensure that the file path is correct abgerny and that R has permission to access it. If you're working with a file located on a network or external drive, try moving it to a local directory to eliminate potential path or access issues.

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