Bioconductor Designmatrix

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subsettingdata edgeR designmatrix

updated 5 days ago by Gordon Smyth 50k • written 6 days ago by prity6459 • 0

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144

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limma designmatrix

updated 18 days ago by Gordon Smyth 50k • written 19 days ago by avery • 0

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998

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DESeq2 designmatrix edgeR limma tidybulk

updated 15 months ago by Michael Love 41k • written 15 months ago by aditya.m ▴ 10

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R designmatrix edgeR limma model.matrix

16 months ago Abdul ▴ 20

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DESeq2 limma modelmatrix edgeR designmatrix

updated 2.5 years ago by Gordon Smyth 50k • written 2.5 years ago by rebecca.lea.johnston • 0

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designmatrix deseq2 DESeq2

updated 2.5 years ago by swbarnes2 ★ 1.3k • written 2.5 years ago by OST • 0

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designmatrix RNA-seq limma

updated 3.1 years ago by Gordon Smyth 50k • written 3.1 years ago by athief ▴ 20

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designmatrix DifferentialExpression edgeR RNAseq

3.2 years ago nageshprabhu.k ▴ 10

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MutlipleFactors DesignMatrix edgeR

3.2 years ago Debayan ▴ 20

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886

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edgeR pairedsamples designmatrix

3.2 years ago sfidemw • 0

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678

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deseq2 miRNASeq designmatrix Batch

updated 4.1 years ago by Michael Love 41k • written 4.1 years ago by anshulmbi • 0

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840

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edger r differentialanalysis rnaseq designmatrix

updated 5.0 years ago by Aaron Lun ★ 28k • written 5.0 years ago by Beginner ▴ 60

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Limma designMatrix

updated 5.8 years ago by Aaron Lun ★ 28k • written 5.8 years ago by Keifa ▴ 10

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limma microarray designmatrix

updated 7.7 years ago by Aaron Lun ★ 28k • written 7.7 years ago by nashchem • 0

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Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0

I had taken this code from internet, but after reading about it and I did on my own, I would be making a post to ask for the suggestions if…

Comment: featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_ge by shuwangxinze1996 • 0

Hello, I used 48 cpus and 320G of memory to run this program. My bam files size are 7-9G, wonder how much CPU and memory is enough?

Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k

This comment helps.

Comment: DESeq2 output used for PCA plot on R studio by Kevin Blighe ★ 3.9k

I am not sure how your comment helps here?

Answer: DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR) by Michael Love 41k

> I got many p values that had "1.000000e+00" and padj "1" and stat of "0" when I added the Log threshold of LFC >1 and LFC < -1...is this …

Votes

A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?

A: How to explain how DESeq2 works to someone with zero bioinformatics background?

Answer: Interpret plot from DiffBind

Answer: How to retrieve gene ontology GO class from gene list?

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Supporter to JKim • 0