Bioconductor Nested

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584

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DESeq2 multifactorial nested

updated 20 months ago by Basti ▴ 780 • written 20 months ago by jd • 0

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1.3k

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nested DESeq2

updated 2.8 years ago by Michael Love 43k • written 2.9 years ago by yampolsk • 0

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1.3k

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deseq2 Phyloseq Nested

updated 4.7 years ago by Michael Love 43k • written 4.7 years ago by mpuli011 • 0

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968

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deseq2 Paired Nested

updated 4.9 years ago by Michael Love 43k • written 4.9 years ago by julia.chariker ▴ 10

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1.2k

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deseq2 nested de

updated 5.0 years ago by Michael Love 43k • written 5.0 years ago by gaio.transposon • 0

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1.4k

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edgeR nested glm glmQLFit

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.6 years ago by jcalis ▴ 10

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2.7k

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edger nested design matrix differential expression

updated 9.8 years ago by Aaron Lun ★ 28k • written 9.8 years ago by Mauve • 0

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2.0k

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edger nested estimatedispersions

9.8 years ago Mauve • 0

8 results • Page 1 of 1

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Comment: Struggle with the replicates of epic array data by Melisa Tecik • 0

Thanks you so much for the instructions. I also tried M values as you suggested but sadly the result was the same. Apparently, the problem …

Answer: bioconductor packages on bioconda by James W. MacDonald 67k

The bioconda people are responsible for bioconda, so you should ask them if/when they are going to update.

Answer: txdb.mmusculus.ucsc.mm10.knowngene issue on X chromosome by James W. MacDonald 67k

The default for `plotKaryotype` is to use hg19.

Comment: Is it possible to parallelise saveHDF5SummarizedExperiment by Stefano Mangiola ▴ 20

saveTileDBSummarizedExperiment would be awesome. I think we need performance for execution time and memory required to save.

Comment: Create Illmina bead summary data by Liu • 0

Hi! Yes, thank you! I completely agree. I am just curious about how these two files are processed with AVG_Gre and detection p-value. I am …

Votes

Answer: Struggle with the replicates of epic array data

Answer: bioconductor packages on bioconda

Appropriate use of the function treat of the limma package

Comment: Is it recommended to analyze different tissues together when using edgeR

Answer: Deseq2 res Function

Awards • All

Scholar to James W. MacDonald 67k