Showing : RNASeqPower • reset
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Are unequal sample sizes in differential gene expression (DGE) analysis a problem for edgeR, DESeq2, and NOISeq? Could you give me some advice on how…
RNA RNASeqPower DEGseq
written 3 months ago by • 0
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featureCounts fails to load annotation file
featurecounts rnas RNASeqPower
4 months ago yasmin.hilliam ▴ 10
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Batch adjustment for cohort based RNA seq data
RNASeqPower removeBatchEffect cpm Batcheffect
5 months ago sukeshinik5 ▴ 20
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RNASeq time course analysis, missing time points for control
RNASeqData RnaSeqSampleSize RNASeq RNASeqPower
15 months ago drewhaydensteele • 0
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Comparing RNASeq data from multiple studies
RNASeqData RnaSeqSampleSize RNASeqPower RNASeq
updated 17 months ago by ▴ 780 • written 17 months ago by • 0
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Is it okay to increase filtering to get more significant Adjusted P Values for DEGs found using Limma?
RNASeqPower edgeR DifferentialExpression limma RNASeq
updated 22 months ago by 52k • written 22 months ago by • 0
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Typo in citation for RNASeqPower
RNASeqPower citation
2.7 years ago stephenjjohnson • 0
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How to calculate coefficient of variation within group?
edgeR limma RNASeqPower
updated 3.0 years ago by 52k • written 4.0 years ago by ▴ 50
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getting sample size for RNAseq experiment
rnaseqpower sspa sample size sequencing complex-design
updated 9.0 years ago by ▴ 20 • written 9.0 years ago by • 0
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Depth or # of reads for RNASeqPower
rnaseqpower
10.4 years ago drnknmstrr • 0
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Power Calculation of multiple factors design of RNA-sequencing study
edgeR DESeq RNASeqPower edgeR DESeq RNASeqPower
11.0 years ago Guest User ★ 13k
11 results • Page 1 of 1
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Comment: Use of limma R package with targeted proteomics for DE analysis by svlachavas ▴ 840
Dear Gordon, thank you for returning back ! Actually the output is not "NPX"-as indeed it most frequent output for a lot of pannels-but as …
Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga by Jane • 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Votes
Comment: Use of limma R package with targeted proteomics for DE analysis
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
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