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DESeq2 recount GTEx TCGA recount3

updated 2.4 years ago by ATpoint ★ 5.0k • written 2.4 years ago by David ▴ 20

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3.3k

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recount3 TCGA GTEx DESeq2

3.3 years ago David ▴ 20

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1.8k

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DESeq2 GTEx

4.6 years ago Bine ▴ 50

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4.1k

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recount gtex

updated 7.0 years ago by Leonardo Collado Torres ★ 1.1k • written 7.0 years ago by abe • 0

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1.5k

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limma voom gtex

7.5 years ago mico • 0

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rnaseq deseq2 gtex

updated 7.9 years ago by Michael Love 43k • written 7.9 years ago by vikram • 0

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4.7k

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public data TCGA GTEx Tutorial

8.2 years ago shepherl 4.2k

7 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…

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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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