Bioconductor Spike-in

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deseq2 ruvseq spike-in time course time series

updated 8.1 years ago by davide risso ▴ 980 • written 8.1 years ago by staceyborrego ▴ 20

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4.3k

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Spike-in RNASeqR DESeq2 Normalization rna-seq

updated 2.4 years ago by manuel.fernandez • 0 • written 3.8 years ago by cicely.day • 0

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3.2k

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deseq2 Tximport Sizefactors normalizationfactors spike-in

updated 5.6 years ago by Michael Love 43k • written 5.6 years ago by Hina Bandukwala • 0

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2.6k

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deseq2 apeglm rna-seq spike-in

updated 5.4 years ago by Michael Love 43k • written 5.4 years ago by nadezda.fursova ▴ 10

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1.8k

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scran spike-in

7.8 years ago supremerulersuraj • 0

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Comment: Upcoming Ensembl API and data access changes - new blog post available by Hugo Gruson • 0

Thanks for the update. To be very explicit: what is going to happen to the Biomart service, on which the biomaRt bioconductor package relie…

Comment: Are individual-mouse-based statistics possible in CellChat? by LillianaVolkman99 • 0

thank you very much. https://www.biostars.org/p/9617271/

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by Gordon Smyth 53k

My apologies, I forgot that `design.group` is not included in the final matrix, because the baseline group effects are already captured by …

Answer: Bile acid analysis with limpa by Gordon Smyth 53k

I am not familiar with targeted HPLC-MS and I don't know what you mean by "peak areas". If it produces standard format mass spec data from …

Comment: Making a Full Rank Model for Allele-Specific Expression with DESeq2 by chp265 • 0

Confirming my understanding after executing the code provided: this is similar to a design formula of `~0+mouse+group+group:allele`, except…

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A: DESeq2: Is it possible to convert read counts to expression values via TPM and r

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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