Bioconductor Sailfish

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deseq2 sailfish tximport

updated 18 months ago by IUH • 0 • written 7.4 years ago by stan • 0

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tximport sailfish rnaseq

updated 8.1 years ago by Michael Love 43k • written 8.1 years ago by lina.faller ▴ 10

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tximport sailfish

8.4 years ago sjmonkley ▴ 40

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deseq2 sailfish differential gene expression

updated 10.0 years ago by Simon Anders ★ 3.8k • written 10.0 years ago by jceledon • 0

4 results • Page 1 of 1

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Answer: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k

You don't mention how your matrix data is being represented, but if it's a file-backed matrix (e.g., `HDF5Matrix` or one of its variants, b…

Comment: contrast matrix design for a continuous variable by dtzhu337 • 0

Thank you, Gordon. X is time splines for time point, and yes, it's needed. However, I was also thinking to incorporate time point with se…

Answer: contrast matrix design for a continuous variable by Gordon Smyth 52k

Yes, the design and contrasts are correct. Your analysis is also adjusted for covariates defined by X, which I assume is what you want to …

Comment: fail to use addPerROIQC in Rmd by liu.n • 0

That's odd. So it can run successfully within markdown but would be failed when knitting?

Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0

> dim(spe) [1] 19962 425

Votes

Answer: contrast matrix design for a continuous variable

A: What's the difference between p.adjust and qvalue?

Answer: DESeq2- merging technical vs biological replicates

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

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