Bioconductor Degraph

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RNASeqData DEGraph RNASeq edgeR DegNorm

written 15 months ago by Shaozhen • 0

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rnaseqGene edgeR DEGraph DifferentialExpression

updated 19 months ago by Gordon Smyth 53k • written 19 months ago by z_bahari • 0

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GO DEGraph GO DEGraph

14.6 years ago Dick Beyer ★ 1.4k

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Pathways Network SPIA DEGraph Pathways Network SPIA DEGraph

updated 14.6 years ago by January Weiner ▴ 370 • written 14.6 years ago by laurent jacob ▴ 100

4 results • Page 1 of 1

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Comment: Help with defining groups by Phinney, Brett ▴ 10

I got it working , thank you!!!

Comment: Check removeBatchEffect effectiveness by massimo • 0

I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…

Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0

Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.

Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k

Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…

Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k

Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…

Votes

Comment: Check removeBatchEffect effectiveness

Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)

Answer: Error Loading Experiment from SimBenchData Package

Comment: incomplete imputation of missing values with LEA impute() function

Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce

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