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0
votes
1
answer
28
views
1
answer
Error when using lfcShrink and contrast argument in DESeq2
deseq2 lfcshrink written 8 hours ago by Oskar • 30 • updated 38 minutes ago by Michael Love ♦ 13k
0
votes
0
answers
19
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0
answers
(Closed) [solved] GSVA error: "second argument must be a list"
gsva error written 4 hours ago by f.geist • 0
0
votes
0
answers
12
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0
answers
pcaEcplorer PCA2go function crashing
pcaexplorer pca2go written 2 hours ago by reubenmcgregor88 • 0
0
votes
1
answer
52
views
1
answer
When is centering and scaling needed before doing hierarchical clustering?
clustering hierarchical clustering written 1 day ago by hrishi27n • 0 • updated 2 hours ago by chris86 • 300
0
votes
2
answers
52
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2
answers
locateVariants function does not find an annotation for the locus
variantannotation locatevariants txdb.hsapiens.ucsc.hg19.knowngene written 1 day ago by Aleksandra • 0
0
votes
0
answers
17
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0
answers
Tximport with paired and single ended reads
limma bioconductor rna-seq written 2 hours ago by chris86 • 300
0
votes
1
answer
63
views
1
answer
Correct way to load a package inside bplapply function
biocparallel parallel written 1 day ago by felix.ernst • 0 • updated 2 hours ago by Martin Morgan ♦♦ 20k
0
votes
1
answer
26
views
1
answer
Install CRISPRseek packageand get documentation
software error written 5 hours ago by susobhanbaidya • 0 • updated 3 hours ago by Martin Morgan ♦♦ 20k
1
vote
1
answer
29
views
1
answer
Error in pcaplot3d from pcaExplorer, when running Deseq2 since update of packages
deseq2 pcaexplorer written 23 hours ago by reubenmcgregor88 • 0
0
votes
1
answer
23
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1
answer
Extract isoform-specific ranges
genomicranges bioconductor written 10 hours ago by hwu12 • 0 • updated 7 hours ago by Michael Lawrence ♦ 9.4k
0
votes
1
answer
43
views
1
answer
WGCNA works on time course data
wgcna written 1 day ago by joseph • 40 • updated 12 hours ago by Peter Langfelder • 1.3k
1
vote
0
answers
25
views
0
answers
IRanges (GRanges): Inconsistent behaviour when overlapping ranges of width 0
iranges granges written 16 hours ago by balwierz • 40
1
vote
1
answer
46
views
1
answer
Error bars on DESeq2 visuals
metagenomics phyloseq deseq2 ggplot2 written 17 hours ago by lauren.czaplicki • 0
1
vote
0
answers
33
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0
answers
Suggestion: spinning wheel for AnnotationHub
annotationhub written 17 hours ago by Michael Love ♦ 13k
1
vote
1
answer
49
views
1
answer
Limma-voom read count analysis
limma voom differentially methylated cpg's read count written 23 hours ago by ioannis.konstantinidis • 0 • updated 16 hours ago by Aaron Lun • 15k
0
votes
1
answer
29
views
1
answer
Can't find Ly76 on my Affymetrix MoGene 2.0ST array annotated with pd.mogene.2.0.st package
annotate pd.mogene.2.0.st mogene20sttranscriptcluster.db written 18 hours ago by felixwertek • 0 • updated 17 hours ago by James W. MacDonald ♦ 44k
0
votes
1
answer
35
views
1
answer
rtracklayer::lifOver one-to-many regions and not match UCSC
rtracklayer R bioconductor liftover written 1 day ago by m.guelfi • 0 • updated 20 hours ago by Michael Lawrence ♦ 9.4k
1
vote
3
answers
75
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3
answers
Why can't I use the same R package to get the same conclusions as the author?
affy limma written 1 day ago by llkxiaolan • 0 • updated 22 hours ago by James W. MacDonald ♦ 44k
0
votes
1
answer
47
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1
answer
Can we use deseq2 for 16s metagenome analysis?
deseq2 written 1 day ago by saiprabhask4 • 0 • updated 23 hours ago by Michael Love ♦ 13k
0
votes
1
answer
51
views
1
answer
Analyze time course experiment with multiple samples from multiple animals with DESeq2
deseq2 design and contrast matrix multiple factor design multifactorial design multiple time points written 2 days ago by Caleb Bostwick • 30 • updated 23 hours ago by Michael Love ♦ 13k
0
votes
2
answers
57
views
2
answers
New version of ChAMP can not proceed through champ.DMP
champ written 2 days ago by sarka.vorackova • 0
3
votes
1
answer
54
views
1
answer
Filtering step in Differential analysis with RSEM values
edger differential gene expression rsem written 1 day ago by ghk • 0 • updated 1 day ago by Gordon Smyth ♦ 31k
2
votes
1
answer
65
views
1
answer
about MAFTOOLS and ComplexHeatmap
complexheatmap maftools written 2 days ago by Bogdan • 470 • updated 1 day ago by anand_mt • 60
2
votes
2
answers
51
views
2
answers
Can't find gene list for KEGG genesets
kegg geneset gage package genelist written 1 day ago by sup230 • 10 • updated 1 day ago by Gordon Smyth ♦ 31k
5
votes
0
answers
521
views
0
answers
News: Bioconductor git server is now LIVE!
news svn git-svn bridge git github git mirror written 1 day ago by nitesh.turaga ♦ 90
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