Bioconductor Ncrna

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computational biology molecular biology RNA r-loop ncRNA Job

6.4 years ago l.brown ▴ 10

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grch37 transcripts biotype biomaRt ncrna

updated 6.6 years ago by James W. MacDonald 68k • written 6.6 years ago by sergio.martinezcuesta ▴ 10

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gsea ncrna coexpression gene set analysis gene set testing

8.9 years ago m.fletcher ▴ 20

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biomart ncrna

updated 9.5 years ago by Thomas Maurel ▴ 800 • written 9.5 years ago by Zhang,Jiexin ▴ 20

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trna ncrna genomicfeatures featuredb biomart

updated 10.0 years ago by Hervé Pagès 16k • written 10.0 years ago by Keith Hughitt ▴ 180

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Comment: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran by Arctic • 0

Many thanks for the link to the C++ code. I will see if I can find someone with C++ experience to help me with the code breakdown from her…

Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran by Aaron Lun ★ 28k

It's calling C++ code, see the relevant function definitions on [GitHub](https://github.com/knncolle/BiocNeighbors/blob/master/src/generics…

Answer: DESeq2 by ATpoint ★ 4.8k

Time courses are often inevitable batches but you should have done the library prep at the same day, just extract RNA per day. If not then …

Comment: Package developing and interoperation with Bioconductor by slizchap • 0

Thank you so much for your answer. This was very useful, I will optimize my functions so they can handle SE objects.

Comment: Package developing and interoperation with Bioconductor by slizchap • 0

Thank you so much for your answer, very useful!

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Comment: plyranges: find exact GRanges match keeping metadata columns

Answer: Help with the code for "BiocNeighbors::generic_find_knn() function used by scran

Is it possible to speed up VariantAnnotation's rowRanges function when converting to a dataframe?

Answer: Is it possible to speed up VariantAnnotation's rowRanges function when convertin

Comment: ComBat with repeated measures

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