User: xiaotong.yao23

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Posts by xiaotong.yao23

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IHW scale of problem
... Hi, I'm trying to use IHW package to achieve covariate weighted p-values for about 35 million hypothesis testings, but the function has been running for 5 hours and still hasn't returned or thrown an error. I'm wondering if 35 million is stretching its scale and what would be the maximal amount of ...
p-value ihw multiple hypothesis written 3 months ago by xiaotong.yao2310 • updated 3 months ago by Wolfgang Huber13k
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Comment: C: coverage() output SimpleRleList cannot be converted to GRanges
... Awesome, thanks! The "incompatibility between the new IRanges and GenomicRanges packages" was refering to the recent changes in both packages like the default `maxgap=-1` argument in `findOverlaps` and the suggested switch from `ranges` to `overlapRanges` method on `Hits` objects. I later read thro ...
written 19 months ago by xiaotong.yao2310
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coverage() output SimpleRleList cannot be converted to GRanges
... Converting the SimpleRleList object to GRanges now does not work. Please advise the quickest fix. It probably has something to do with the seqlengths of the objects and the incompatibility between the new IRanges and GenomicRanges packages. > > segs GRanges object with 1794 ranges and 7 meta ...
coverage genomicranges granges bug rlelist written 19 months ago by xiaotong.yao2310 • updated 19 months ago by Hervé Pagès ♦♦ 14k

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