Showing : fdr • reset
1
vote
1
reply
979
views
Weird distribution of p-values, with no significant adjusted p-values?
fdr limmaGUI p-values limma
updated 2.1 years ago by 67k • written 2.1 years ago by • 0
7
votes
2
replies
2.3k
views
False discovery rates in DEP
p-value FDR DEP
updated 3.4 years ago by ▴ 510 • written 3.9 years ago by ▴ 60
4
votes
6
replies
1.7k
views
Question about the usage of Package, qvalue
statistical significance p-value q-value FDR qvalue
4.8 years ago manozawa ▴ 10
2
votes
2
replies
3.6k
views
How adjusted p-values are calculated in limma
limma r transcriptomics FDR statistics
updated 5.1 years ago by 51k • written 5.1 years ago by ▴ 10
1
vote
2
replies
2.2k
views
FDR and mixed FDR in limma fry()
limma FDR
updated 5.4 years ago by 51k • written 5.4 years ago by • 0
0
votes
1
reply
1.5k
views
Dependence of FDR and P-values on sample size
edgeR FDR p-value Benjamini-Hochberg Differential Analysis
updated 5.7 years ago by ★ 28k • written 5.7 years ago by • 0
2
votes
12
replies
1.9k
views
msmsTests, NA values in test.results output
Proteomics msmstests FDR
updated 6.1 years ago by 1.6k • written 6.1 years ago by • 0
3
votes
2
replies
5.3k
views
p.adjust function fdr and BH
fdr BH
updated 6.3 years ago by 51k • written 6.3 years ago by ▴ 10
3
votes
4
replies
2.3k
views
Does Fold change cutoff changes the FDR value using glmTreat function in edgeR?
edgeR r bioconductor diffferential expression fdr
updated 6.4 years ago by 67k • written 6.4 years ago by ▴ 120
0
votes
6
replies
1.7k
views
Defining subsets for FDR correction
fdr deseq2 ihw
updated 6.4 years ago by 42k • written 6.4 years ago by ▴ 30
41
votes
44
replies
12k
views
Are published RNA seq data analyses often wrong in calculating p-values and FDR?
FDR p-value DESeq RNA-Seq
updated 6.9 years ago by ▴ 60 • written 7.5 years ago by ▴ 10
11
votes
3
replies
11k
views
Volcanoplot with limma - RAW P-values or Adj.P-Values
volcanoplot limma fdr
7.3 years ago • updated 4.0 years ago tcalvo ▴ 100
0
votes
1
reply
1.2k
views
EdgeR dispersion and FDR
edger FDR rnaseq
updated 7.4 years ago by ★ 28k • written 7.4 years ago by • 0
2
votes
5
replies
3.7k
views
Limma toptable interpretation check
limma microarray fdr p-value results
updated 7.4 years ago by ★ 28k • written 7.4 years ago by ▴ 30
0
votes
1
reply
1.4k
views
FUNCTIONAL ENRICHMENT ANALYSIS
genecodis3 fdr
updated 7.5 years ago by ★ 3.4k • written 7.5 years ago by ▴ 30
2
votes
2
replies
1.4k
views
fdr score for degs
fdr deg
updated 7.5 years ago by ▴ 830 • written 7.5 years ago by ▴ 30
1
vote
5
replies
3.4k
views
Inspection and Correction of p-values in DESeq2 pipeline by Bernd
deseq2 FDR fdrtool
updated 7.7 years ago by ▴ 610 • written 7.7 years ago by ▴ 20
1
vote
1
reply
1.7k
views
Question about testing main factors and doing FDR correction in a multiple-factor design in DESeq2.
deseq2 multiple factor design FDR fdrtool
updated 7.7 years ago by 42k • written 7.7 years ago by • 0
2
votes
2
replies
8.4k
views
edgeR: How is FDR calculated for logFC? (False Discovery Rate)
edgeR bioconductor fdr statistics differential gene expression
7.9 years ago jol.espinoz ▴ 40
0
votes
1
reply
1.6k
views
Change the FDR in DEXSeq
FDR padj
updated 8.0 years ago by ▴ 50 • written 8.1 years ago by • 0
69
votes
8
replies
59k
views
conceptual question about FDR, FDR adjusted p-value and q-value
fdr qvalue
updated 8.1 years ago by 51k • written 11.9 years ago by ▴ 440
0
votes
2
replies
1.8k
views
DESeq with hierarchical FDR correction
deseq2 fdr
updated 9.2 years ago by 42k • written 9.2 years ago by • 0
2
votes
15
replies
3.4k
views
BiSeq trimClusters FDR.loc confusion
biseq fdr data results
9.6 years ago • updated 9.5 years ago mnaymik ▴ 10
3
votes
5
replies
2.1k
views
help! new to R! Detection p value cut off
p values microarray FDR
9.7 years ago a • 0
1
vote
4
replies
2.7k
views
strange FDR distribution for RNA-seq sample with edgeR
edgeR RNA-seq FDR
updated 9.9 years ago by 51k • written 9.9 years ago by ▴ 10
25 results • Page 1 of 1
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Comment: Differential Expression Analysis with unbalanced batches without replication bet by Thili • 0
Thank you for your reply. I currently have batch-corrected data processed with scvi-tools (specifically, totalvi) and have followed the sam…
Comment: Problem at champ.load by andrew.gibbons • 0
I'd love to know if anyone has a workaround too. I've tried rolling back ChAMP and R to the previous versions that others have said work wi…
Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column by GV Yoshikawa • 0
Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…
Answer: Differential Expression Analysis with unbalanced batches without replication bet by Gordon Smyth 51k
> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…
Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0
I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…
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