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bedbaser offtopic

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RNA-Seq sequencer library_size sequency_depth multiplexing offtopic

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mygene offtopic

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derfinderData SpikeInSubset musicatk Guitar offtopic

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ChIPSeq SICER2 DiffBind MACS2 offtopic

updated 4.7 years ago by James W. MacDonald 68k • written 4.7 years ago by Yuan Tian ▴ 290

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Answer: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Michael Love 43k

You may want to look at the coefficients you are trying to estimate with ExploreModelMatrix: https://www.bioconductor.org/packages/relea…

Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by emily.wolfrum • 0

Hi Gordon, Thanks for the quick reply. The technical or process blank samples I'm referring to are part of a set of quality control sampl…

Answer: Are individual-mouse-based statistics possible in CellChat? by ATpoint ★ 5.0k

Not a Bioconductor package, I commented on the crosspost at https://www.biostars.org/p/9617271/

Answer: DESeq2 - how to shrink LFC for pairwise comparisons having multiple groups by ATpoint ★ 5.0k

apeglm is more cumbersome than ashr as with apeglm the coefficients need to be explicitely available in the resultsNames.So, you need to re…

Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Martin Morgan 25k

I see rstudioapi in the `sessionInfo()`. RStudio does not support forked ('multicore') processes. Does the BiocParallel example work when y…

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A: Filtering read counts matrix: how to deal with duplicated gene symbols, differen

Comment: limpa analysis advice

Answer: When to use edgeR or limma

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