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Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 3 days ago by ★ 4.1k • written 3 days ago by • 0
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150
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DESEQ2 IHW and Apelgm method for Shrinkage (adding s values to FDR)
DESeq2 RNAseq
updated 10 days ago by 41k • written 10 days ago by • 0
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limma-voom: Calculate the log-fold change in gene expression within a sample
limma RNASeq voom
written 12 days ago by • 0
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2
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RNAseq:Technical replicates from different batches
technicalReplicates BatchEffect limma RNASeq
16 days ago • updated 13 days ago catv • 0
0
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ONT long-read RNA sequencing - data analysis options
DESeq2 LongRead DEXSeq IsoformSwitchAnalyzeR RNASeq
updated 17 days ago by 41k • written 17 days ago by • 0
3
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1
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176
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Log-cpm values from limma
limma edgeR RNASeq
updated 16 days ago by 50k • written 17 days ago by • 0
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139
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Can you find the correct transcript in scRNA seq data
scRNAseq RNAseq
updated 25 days ago by ★ 4.1k • written 27 days ago by • 0
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How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
clusterProfiler RNASeq
updated 11 days ago by ★ 1.2k • written 14 months ago by ▴ 10
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Single-Cell Data Simulation from Bulk RNA-seq
SingleCell RNASeq RNASeqData scRNAseq
updated 17 days ago by • 0 • written 17 months ago by • 0
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SGSeq: moving toward diffex from SGSeq analysis
sgseq rnaseq
updated 4 hours ago by • 0 • written 6.7 years ago by ▴ 80
10 results • Page 1 of 1
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Comment: SGSeq: moving toward diffex from SGSeq analysis by Sara • 0
Thank you for your response. I have another question about saving the sgvc result as a CSV file. I would appreciate your help, please. ``` …
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
I tried different block lengths first and considered 100000 to be ideal because of the almost similar inter-range distance. S1= bootRange…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 41k
The segmentation and block length are key parameters. We recommend for example blocks of length ~500kb. It would help if you would post yo…
Answer: Handling multiple differential expression comparisons by Michael Love 41k
It's typical that results are presented with each group having its own FDR control. So presenting each comparison with the adjusted p-va…
Comment: Too many significant genes when integrating gtex and tcga by ATpoint ★ 4.1k
These two datasets are from completely different experiments / batches. It is utterly meaningless to compare them. I would suggest comparat…
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Print Differentially Expressed Exons From Dexseq Results
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
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