Bioconductor Integerlist

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r iranges findoverlaps IntegerList List

8.5 years ago • updated 8.3 years ago jian_liangli • 0

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r iranges integerlist DataFrame

updated 8.3 years ago by Jurat Shahidin ▴ 80 • written 8.3 years ago by jian_liangli • 0

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r iranges integerlist

8.4 years ago Jurat Shahidin ▴ 80

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r s4vectors integerlist iranges

updated 8.4 years ago by Michael Lawrence ★ 11k • written 8.4 years ago by jian_liangli • 0

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iranges integerlist s4

8.5 years ago Jurat Shahidin ▴ 80

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s4 coercion iranges integerlist

8.5 years ago jian_liangli • 0

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Answer: SingleR with multiple single cell references by Aaron Lun ★ 28k

> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…

Answer: Automatically install dependencies by ATpoint ★ 4.7k

The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…

Answer: To count or not to count multi-overlapping reads? by Gordon Smyth 52k

> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…

Comment: Weird p-values using DESeq2? by ATpoint ★ 4.7k

This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…

Answer: Weird p-values using DESeq2? by Wolfgang Huber ★ 13k

Dear Ingrid, thank you for asking. Can you provide the input count matrix (you can "pseudonymize" the biological conditions and the gene n…

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A: Fraction count for multi mapping reads; how to generate input file for Deseq2 fo

Comment: Weird p-values using DESeq2?

Comment: Overcoming confounding in batch effect correction

Answer: Store Matrix in DataFrame Cell

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