Showing : spectral counts • reset
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Statistical analysis of Spectral count data : edgeR, limma or others ?
spectral counts proteomics limma edger deseq
updated 6.0 years ago by 43k • written 6.0 years ago by ▴ 60
24
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voom for spectral counts
limma voom proteomics spectral counts massspectrometry
updated 6.4 years ago by 43k • written 6.4 years ago by ▴ 40
2 results • Page 1 of 1
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Comment: Determining number of genes in each module based on color in WGCNA package by schum266 • 0
For anyone who might be interested. I was able to figure this out. It's very easy.... just set numericLabels = FALSE. (*sigh*) ``` net = …
Comment: Research fellow in immunology by ATpoint ▴ 640
Try starting a new R session and then load the package again. If that fails then manually install ellipsis version 0.3.2 or greater. By the…
Answer: Creating the correct model to account for paired-samples (patient-effect) help n by Gordon Smyth 43k
In the limma User's Guide, Section 9.4.1 *Paired Samples* covers paired designs. In the edgeR User's Guide, it is Section 3.4.1.
Comment: How to convert .CEL file to .VCF file? by jesus • 0
Thank you! I'd already seen it, but the problem is that I'm using Windows and I think that code is only for Linux. Thanks anyway!
Comment: DESeq2 codes by Ram ▴ 60
DESeq2 is a piece of software that can be used to find statistically significant differential expression in RNAseq datasets. See: https://b…
Votes
Comment: What is the correct use of removeBatchEffect's design parameter
Answer: DESeq2 for allele-specific expression with contrasts between conditions
C: DESeq2 question about use of DESeqDataSetFromTximport() from RSEM data
Comment: Data input for aracne2regulon function in viper package
Comment: DESeq2: NA's in mcols(object)$betaConv
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