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31
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2
answers
31k
views
15 follow
2
answers
conceptual question about FDR, FDR adjusted p-value and q-value
qvalue fdr written 6.1 years ago by Jack Luo • 390 • updated 2.3 years ago by Gordon Smyth ♦ 36k
5
votes
2
answers
26k
views
6 follow
2
answers
[DESEQ2] How to access the normalized data of a DESeqDataSet
deseq2 written 3.8 years ago by john • 50 • updated 3.8 years ago by Steve Lianoglou ♦ 12k
0
votes
4
answers
25k
views
4
answers
how to set R memory limit
written 7.0 years ago by wang peter • 2.0k • updated 7.0 years ago by Sunny Yu Liu • 80
13
votes
2
answers
21k
views
9 follow
2
answers
heatmap.2() get matrix after hierarchical clustering
clustering written 6.3 years ago by Guest User • 12k • updated 6.3 years ago by Thomas Girke • 1.7k
1
vote
2
answers
21k
views
2
answers
error in hclust function
written 6.6 years ago by Alyaa Mahmoud • 440 • updated 6.6 years ago by Thomas Girke • 1.7k
8
votes
1
answer
21k
views
8 follow
1
answer
DESeq2 output explanation
deseq deseq2 written 4.2 years ago by francesca.defilippis • 60 • updated 4.2 years ago by Michael Love ♦ 21k
0
votes
1
answer
20k
views
1
answer
no method for coercing S4 class to a vector
written 4.4 years ago by Guest User • 12k • updated 4.4 years ago by Andrzej Oleś • 720
0
votes
0
answers
20k
views
0
answers
Why the resuts are so different between the classic and the glm methods?
edger written 5.1 years ago by Jiantao Yu • 10
2
votes
1
answer
18k
views
1
answer
Row labels in a heatmap
microarray written 6.5 years ago by Liat Shavit Grievink • 60 • updated 6.5 years ago by James W. MacDonald ♦ 49k
0
votes
1
answer
17k
views
1
answer
Upgrading Bioconductor using BiocUpgrade
biocinstaller written 6.2 years ago by Lavinia Gordon • 480 • updated 6.2 years ago by Dan Tenenbaum • 8.2k
0
votes
1
answer
17k
views
1
answer
Error in plot.window(...) : need finite 'xlim' values
written 10.2 years ago by T Joshi • 90 • updated 10.2 years ago by Sean Davis ♦ 21k
12
votes
1
answer
16k
views
1
answer
RPKM, CPM and TMM
rnaseq edger differential expression written 3.6 years ago by Pauly Lin • 80 • updated 3.6 years ago by Aaron Lun • 22k
5
votes
3
answers
15k
views
3
answers
BLAST in R
written 7.6 years ago by Zoha Moztarzadeh • 20 • updated 3.1 years ago by mhahsler • 20
0
votes
1
answer
13k
views
1
answer
Unable to find an inherited method for function ‘exprs’
biobase geoquery virtualarray written 5.4 years ago by Dave Tang • 210 • updated 5.4 years ago by Wolfgang Huber ♦ 13k
10
votes
2
answers
12k
views
8 follow
2
answers
deseq2 filter the low counts
deseq2 lowcount written 3.9 years ago by aristotele_m • 20 • updated 2.3 years ago by pkachroo • 10
0
votes
4
answers
12k
views
4
answers
installation packages
written 5.4 years ago by fran vino • 40 • updated 5.3 years ago by Steve Lianoglou ♦ 12k
3
votes
2
answers
12k
views
7 follow
2
answers
Problems updating Bioconductor with R 3.2.0
r update upgrade written 3.8 years ago by daniil.sarkisyan • 10 • updated 3.8 years ago by Dan Tenenbaum • 8.2k
1
vote
1
answer
12k
views
1
answer
reading fasta file into R
biostrings written 6.5 years ago by Guest User • 12k • updated 6.5 years ago by Vincent J. Carey, Jr. ♦ 6.3k
11
votes
0
answers
11k
views
5 follow
0
answers
limma moderated t-statistics and B-statistics
microarray limma written 14.3 years ago by Gordon Smyth ♦ 36k
0
votes
2
answers
11k
views
5 follow
2
answers
Fine tuning heatmap.2 graphics
microarray written 12.9 years ago by Marc Saric • 70 • updated 12.9 years ago by Wittner, Ben • 290
0
votes
1
answer
11k
views
1
answer
EdgeR LogCpm and LogFC values calculation
edger written 5.0 years ago by Gordon Smyth ♦ 36k • updated 5.0 years ago by Koen Van den Berge • 130
2
votes
1
answer
11k
views
1
answer
Normalization in DESeq2
deseq deseq2 written 4.1 years ago by solgakar@bi.technion.ac.il • 60 • updated 4.1 years ago by Michael Love ♦ 21k
2
votes
2
answers
11k
views
2
answers
Limma design and contrast matrix question.
microarray regression limma written 5.0 years ago by Matthew Thornton • 290 • updated 5.0 years ago by James W. MacDonald ♦ 49k
8
votes
2
answers
11k
views
5 follow
2
answers
Differential expression of RNA-seq data using limma and voom()
limma written 5.2 years ago by Jon Bråte • 150 • updated 2.5 years ago by Gordon Smyth ♦ 36k
10
votes
2
answers
11k
views
2
answers
FDR and padj in deseq and edger
edger deseq2 written 3.2 years ago by tonja.r • 40 • updated 3.2 years ago by Gordon Smyth ♦ 36k
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