Showing : without Replicate • reset
1
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6
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3.1k
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Can I use EdgeR log2(cpm) instead of voom log2(cpm) to be analyzed as microarray data?
limma edger timecourse without replicate voom
written 8.0 years ago by ▴ 10
0
votes
1
reply
720
views
BSmooth does give DMRs without no replicate data sets
bsmooth without replicate dimension
6.3 years ago nilaycan • 0
0
votes
3
replies
1.2k
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time-series, no replicates, no control groupe
deseq2 time-series without replicate
updated 6.4 years ago by 42k • written 6.4 years ago by • 0
1
vote
5
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3.4k
views
steps to get up and down regulated genes using DESeq2
deseq2 without replicate no replicates
updated 6.5 years ago by 42k • written 6.5 years ago by • 0
5
votes
6
replies
5.2k
views
Analyzing data without replicates using DiffBind
diffbind bioconductor differential binding analysis without replicate chipseq
7.0 years ago Hesh ▴ 10
4
votes
5
replies
2.7k
views
edgeR- DE analysis with no replicates
edger differential gene expression without replicate nested design help
updated 8.4 years ago by ★ 28k • written 8.4 years ago by • 0
3
votes
6
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1.5k
views
Question about edgeR usage with one case and multiple controls
edgeR differential expression without replicate
8.4 years ago gavin.oliver • 0
0
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3
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1.6k
views
to call differential peaks among 4 peaksets all together using DiffBind
diffbind without replicate
updated 8.7 years ago by ▴ 670 • written 8.7 years ago by • 0
2
votes
7
replies
3.0k
views
edgeR for with no Replicate
edger without replicate
updated 8.9 years ago by ▴ 880 • written 8.9 years ago by • 0
1
vote
1
reply
1.6k
views
edgeR for without Replicate
edger without replicate
updated 8.9 years ago by ★ 28k • written 8.9 years ago by • 0
0
votes
10
replies
5.1k
views
DESeq2 analysis without Replicate
without Replicate deseq2
updated 3.4 years ago by 42k • written 8.9 years ago by • 0
11 results • Page 1 of 1
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Comment: WGCNA with TPM tables by ATpoint ★ 4.5k
WGCNA is not a Bioconductor package, but generally: If you want to do serious analysis then find the raw data. There is no guarantee what …
Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by Paul • 0
You are an absolute lifesaver, thank you so much for the clarification!
Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k
The `EnsDb.Mmusculus.v79` package is mm38, not mm39. If you want a current `EnsDb`, use `AnnotationHub` ``` > library(AnnotationHub) >…
Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k
I'm adding my comment to the threaded section ... I don't have any suggestions here but whatever method you're using is not appropriate up…
Comment: ANOVA like approach of edgeR by Yunshun Chen ▴ 880
If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …
Votes
Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac (
Comment: does anyone how to create rarefaction curves from a phyloseq object?
Answer: ANOVA like approach of edgeR
A: ANOVA-like test with edgeR
Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data
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