Showing : RNA-seq • reset
9
votes
12
replies
8.6k
views
Multi factor design edgeR/Deseq2
deseq2 edgeR rna-seq
updated 9 months ago by • 0 • written 9.5 years ago by ▴ 30
5
votes
2
replies
26k
views
DESeq2: thousands of NA for pvalues?
deseq2 rna-seq DEGs cooks cutoff
written 6.0 years ago by ▴ 30
3
votes
3
replies
1.0k
views
permutation test in edgeR
rna-seq edgeR
updated 8 months ago by 52k • written 9 months ago by • 0
2
votes
4
replies
702
views
DESeq2- Mysterious interaction suppresses DEGs
DESeq2 PCAplot RNA-Seq DesignModel
updated 7 months ago by 43k • written 8 months ago by • 0
2
votes
5
replies
1.1k
views
Too many significant genes when integrating gtex and tcga
RNA-seq DESeq2
updated 6 months ago by ★ 4.6k • written 8 months ago by • 0
1
vote
6
replies
997
views
Volcano plot has many values around zero
RNA-seq DESeq2 volcanoplot
updated 9 weeks ago by 43k • written 9 weeks ago by ▴ 10
1
vote
3
replies
606
views
Including infectivity information to RNA-Seq analysis
RNASeqData DESeq2 RNA-Seq RNASeq
updated 7 months ago by 67k • written 7 months ago by ▴ 50
1
vote
2
replies
666
views
Multi-factorial, longitudinal disease progression analysis with unbalanced patient sampling - duplicateCorrelation or blocking?
rna-seq duplicateCorrelation limma voom
8 months ago Dylan.Sheerin • 0
0
votes
0
replies
237
views
WGCNA: Problem with selecting soft threshold
biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna
3 months ago Fernanda • 0
0
votes
2
replies
333
views
RNA-Seq p value range variation
DESeq2 pvalue RNA-Seq
3 months ago paul.meraner • 0
0
votes
1
reply
950
views
How to arrange multiple plots into one page in NOISeq?
noiseq RNA-seq quality control
updated 7 months ago by • 0 • written 5.4 years ago by ▴ 80
11 results • Page 1 of 1
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Replies
Answer: promoters_txdb <- promoters(txdb, upstream = 2000) is not 2000 by James W. MacDonald 67k
If you use `promoters` and do not provide an argument for something that has a default, you will get the default argument. Your last call t…
Comment: org.Hs.eg.db issue by k.panov • 0
installed R on another PC, works perfectly. ergo, problem outside of R probably..... :-(
Comment: MBDseq analysis using qsea package by Lukas ▴ 20
Hi, I checked in with Matthias and here is his response: You need to indicate "samples": "The indices of the samples for which individu…
Comment: DESeq2 analysis with transcript counts by sindhuri • 0
Thank you for the response. Currently I am using the R studio for analysis and Im running DESeq2 for analysis of the **transcript counts.ts…
Comment: iam not able to do retrive data using GEOquery R package by James W. MacDonald 67k
Another alternative is to use the `GEOmetadb` package ([vignette here)][1], which will allow you to make queries to identify GEO datasets t…
Votes
Answer: Is there any chance to solve "the model matrix is not full rank" in DESeq2?
Answer: Issue carrying out DiffBind Analysis at a predefined peak set
Answer: Differential variability modelling with vst() expression
Answer: Differential variability modelling with vst() expression
Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu
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