Showing : rnaseq • reset
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Using featureCounts with SAF annotation file gives "Error: only GTF files contain additional attributes"
RNASeq Rsubread
updated 2 days ago by ★ 3.6k • written 3 days ago by • 0
2
votes
2
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141
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Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools limma ExpressionData RNASeq edgeR
5 days ago mohammedtoufiq91 ▴ 10
1
vote
1
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196
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How to remove batch effect to combine RNAseq data from 2 different experiments?
BatchQC BatchEffect RNASeq
updated 6 days ago by 66k • written 6 days ago by • 0
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0
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53
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scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
RNASeq scRNAseq
7 days ago Bibi • 0
1
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3
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288
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How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups
DifferentialExpression TimeCourse timeOmics edgeR RNAseq
updated 12 days ago by 50k • written 13 days ago by • 0
0
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3
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248
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Differences in differential analysis methods for RNA-Seq
DESeq2 StatisticalMethod Proteomics DifferentialExpression RNASeq
updated 24 days ago by ★ 4.2k • written 25 days ago by • 0
0
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2
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limma-voom: Calculate the log-fold change in gene expression within a sample
limma RNASeq voom
written 4 weeks ago by • 0
5
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3
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333
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Log-cpm values from limma
limma edgeR RNASeq
updated 17 days ago by 50k • written 5 weeks ago by • 0
10
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11
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1.9k
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SGSeq: moving toward diffex from SGSeq analysis
sgseq rnaseq
updated 4 days ago by • 0 • written 6.8 years ago by ▴ 80
9 results • Page 1 of 1
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Comment: ChAMP not available for bioconductor 3.19 by Macsue • 0
Warning message:package ChAMP is not available for Bioconductor version 3.19 A version of this package for your version of R might be avail…
Comment: ChAMP not available for bioconductor 3.19 by Macsue • 0
> if (!require("BiocManager", quietly = TRUE)) + install.packages("BiocManager") Bioconductor version 3.19 (BiocManager 1.30.23), R 4.4…
Comment: How to add Ensembl ids after Pseudobulk analysis by DESeq2 by BioinfGuru ▴ 30
I would use biomaRt. This is what happens when annotation occurs to early. If possible I would run the DEG analysis on the original output…
Comment: Volcano plot of scRNA-seq data not "centered" by ATpoint ★ 4.2k
My comment was generic. If your experiment causes drastic shifts then the situation might be different. The advise is the same: Try to use …
Comment: conumee with Infinium MethylationEPIC v2.0 by Maximus • 0
Hi Sole, If there is a combined mixture of MSet of 450K, EPIC and EPICv2, how should I create an annotation object? I tried to create anno…
Votes
A: Analyzing data without replicates using DiffBind
A: Analyzing data without replicates using DiffBind
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
DESeq2 swap ensembl gene id rownames with gene symbol column
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
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