Bioconductor ShRNA

Showing : shRNA • reset

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1.7k

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edger shrna

7.7 years ago sirintra ▴ 10

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2.1k

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shrna edger deseq2 differential expression normalized counts

8.3 years ago Jane Merlevede ▴ 90

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1.1k

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limma gmap shRNA dropout screen

updated 8.5 years ago by Aaron Lun ★ 28k • written 8.5 years ago by Anna Dvorkin ▴ 40

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1.8k

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edgeR processamplicons shrna

updated 9.0 years ago by thomas.leete • 0 • written 9.1 years ago by Anne Deslattes Mays ▴ 10

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2.9k

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shRNAseq edgeR shRNA

updated 9.2 years ago by Gordon Smyth 51k • written 9.2 years ago by KB ▴ 50

5 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