Bioconductor TissueEnrich

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TissueEnrich

3.5 years ago sarvesh.nikumbh ▴ 10

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TissueEnrich

updated 4.6 years ago by Ashish Jain ▴ 10 • written 4.6 years ago by xiaoxiaoxiaobu • 0

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TissueEnrich

updated 5.9 years ago by Ashish Jain ▴ 10 • written 5.9 years ago by Carina Yang • 0

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TissueEnrich

updated 6.2 years ago by Ashish Jain ▴ 10 • written 6.2 years ago by fshodan • 0

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rna-seq TissueEnrich tissue-specific expression differential expression

updated 6.2 years ago by Ashish Jain ▴ 10 • written 6.2 years ago by andrew.oler • 0

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Answer: fast apply on RleList by story.benjamin ▴ 20

solved with viewApply (code is simplified below) + map reduce on chrs test.split <- split(test.gr,seqnames(test.gr)) final.st…

Comment: fast apply on RleList by story.benjamin ▴ 20

Hi James, thanks for the reply. I ultimately figured it out ... viewApply showed a massive speed increase for me (see other answer) - I was…

Answer: fast apply on RleList by James W. MacDonald 68k

There is already a 'mean' function that will dispatch on an `RleList` that you can use. I don't have a long `RleList` in hand to test it on…

Answer: Custom CDF creation for HTA 2.0 array using GTF annotation by James W. MacDonald 68k

It doesn't appear that Manhong Dai is working at UM any longer, and the webpage appears to have fallen into disrepair (for example, the lin…

Comment: how to use `arrayWeightsQuick()`? by matthew • 0

In the specific use-case I have in mind, `expression` is a simple `matrix` of log2 gene expression per sample, no missing values.

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Answer: fast apply on RleList

Answer: BiocParallel_1.40.1.tar.gz not available

Modelling gene program dynamics across time with {lemur}

A: DESeq2 one group vs multiple groups comparison in presence of batch effect

Comment: BiocParallel_1.40.1.tar.gz not available

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