Biostar Methods

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s4 methods SummarizedExperiment

updated 3.4 years ago by Aaron Lun ★ 27k • written 3.4 years ago by brendan.innes ▴ 10

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562

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devtools S4 methods cache

3.6 years ago Michael Steinbaugh ▴ 70

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459

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deconvolution methods

4.4 years ago casey.rimland ▴ 140

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579

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BSgenome methods GenomicRanges

2.8 years ago Aditya ▴ 140

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380

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S4Vectors methods

2.8 years ago Aditya ▴ 140

5 results • Page 1 of 1

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Answer: Unable to open hd5 file using rhdf5 but can list contents by Mike Smith ★ 5.6k

If you can list the contents with `h5ls()`, then it should be possible to read. You can get the `Error in H5Fopen("file.h5") : HDF5. Fil…

Comment: RSEM - tximport; where is effective_length information used? Implications for sc by Michael Love 37k

tximport *imports* the length information, then if you see the pipelines in the vignette, the information is passed off to the different pa…

Comment: package 'BiocInstaller' is not available (for R version 3.4.4) by James W. MacDonald 60k

I can get that to work using both the release R-4.2.0 version, as well as an old R-3.5.3. I don't have R-3.4.4 readily available but I imag…

Answer: Combine GRanges(List) to a single GRanges with unified breakpoints by Malcolm Cook ★ 1.6k

I find that your problem statement suffers in many ways: - it mentions 6 Granges objects but I don't see 6 of anything in the figure - …

Comment: cellCounts() function floating point error by J-E • 0

I tested again the cellCounts() function on the new scNAseq dataset and example provided in Rsubread 2.10.4, using R 4.2.0 and Biocionducto…

Votes

Answer: package 'BiocInstaller' is not available (for R version 3.4.4)

Answer: Limma beta coefficient confidence intervals

Answer: batchelor correctExperiments() returns Error in eval(subscript, envir = eframe,

Comment: batchelor correctExperiments() returns Error in eval(subscript, envir = eframe,

A: Retrieve canonical transcript for each gene via ensembldb R package

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Teacher to Gordon Smyth 45k