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1
vote
1
answer
14
views
1
answer
How to create tx2gene data.frame when there's no TxDb object for the organism you are working with.
annotationdbi deseq2 tximport written 48 minutes ago by prab4th • 0 • updated 18 minutes ago by Johannes Rainer • 960
0
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0
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24
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0
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POU5F1(OCT4) /ENTREZID: 5460 is not in the TxDb.Hsapiens.UCSC.hg19.knownGene
txdb.hsapiens.ucsc.hg19.knowngene written 55 minutes ago by tangming2005 • 70
0
votes
1
answer
26
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1
answer
DESeq2 Dispersion Shrinkage - more samples is better?
deseq2 dds written 14 hours ago by rrcutler • 30 • updated 10 hours ago by Michael Love ♦ 13k
1
vote
2
answers
29
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2
answers
Gene Size using GenomicFeatures
genomicfeatures gene length gene size written 23 hours ago by ehimelbl • 0
0
votes
1
answer
33
views
1
answer
Different PCA plots using rlog and vsd on the same data set
deseq2 pca rlog variancestabilizingtransformation plotpca written 1 day ago by lirongrossmann • 0 • updated 16 hours ago by Michael Love ♦ 13k
0
votes
0
answers
30
views
0
answers
Error: unable to find an inherited method for function searchSeq for signature matrix
tfbstools jaspar pwm written 1 day ago by chrisclarkson100 • 30
1
vote
1
answer
26
views
1
answer
Could not find function "makeTranscriptDbFromGFF"
annotation genomicfeatures gff maketranscriptdbfromgff written 1 day ago by Gary • 0 • updated 23 hours ago by Michael Lawrence ♦ 9.6k
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2
answers
102
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2
answers
Pathview -- Error in korg[ridx, coln] : subscript out of bounds
pathview subscript out of bounds tutorial korg written 9 days ago by aacevedo • 0 • updated 23 hours ago by Paulson, Ariel • 10
3
votes
2
answers
48
views
2
answers
limma-trend with random effects and/or array weights
limma duplicatecorrelation arrayweights limma-trend written 1 day ago by maltethodberg • 40 • updated 1 day ago by Gordon Smyth ♦ 31k
0
votes
0
answers
23
views
0
answers
Error executing flowcore vignette
flowcore software error vignette written 1 day ago by Robert Baer • 70
0
votes
1
answer
41
views
1
answer
appointing a new maintainer for my package
bioconductor written 1 day ago by christophbernau • 0 • updated 1 day ago by Martin Morgan ♦♦ 20k
0
votes
1
answer
49
views
1
answer
How to plot Oncoplot with out sorting
maftools written 4 days ago by seeker • 0 • updated 1 day ago by anand_mt • 60
1
vote
1
answer
46
views
1
answer
DESeq2 Design Formula for Time Series Experiment
deseq2 written 2 days ago by gkuffel • 10 • updated 2 days ago by David Requena • 0
2
votes
1
answer
55
views
1
answer
Obtaining transcript names in RSEM
tximport rsem written 2 days ago by deena • 0 • updated 2 days ago by Michael Love ♦ 13k
3
votes
2
answers
86
views
2
answers
About the results and contrast (DESeq2)
deseq2 differential expression rna-seq written 5 days ago by David Requena • 0
10
votes
1
answer
1.5k
views
5 follow
1
answer
Bootstrap confidence intervals on RNA-seq expression from Kallisto
rnaseq limma edger deseq2 voom written 2.3 years ago by Sean Davis ♦ 20k • updated 2 days ago by Paul Harrison • 60
0
votes
1
answer
32
views
1
answer
R session crash with SGSeq::convertToTxFeatures
sgseq txdb crash maketxdbfrombiomart txfeatures written 2 days ago by oolongoni • 10 • updated 2 days ago by Leonard Goldstein • 20
0
votes
1
answer
38
views
1
answer
Error downloading the package
download tcga tcgabiolinks written 2 days ago by sup230 • 10 • updated 2 days ago by James W. MacDonald ♦ 44k
1
vote
2
answers
53
views
2
answers
Expression profile from $E from Voom
voom $elist written 2 days ago by anpham • 0 • updated 2 days ago by Steve Lianoglou ♦ 12k
0
votes
1
answer
33
views
1
answer
CNVPanelizer package error
cnvpanelizer failed to open bamfile failed to load bam index file written 2 days ago by sbpatel2009 • 0
0
votes
0
answers
30
views
0
answers
Legend for Gviz annotation track?
gviz legend written 2 days ago by Silvia • 0
0
votes
1
answer
61
views
1
answer
Sample-to-sample distance matrix using heatmap.2
deseq2 heatmap.2 gplots written 4 days ago by Jane Merlevede • 90
2
votes
1
answer
37
views
1
answer
problem with DESeq2 on metagenome analysis
deseq2 metagenome written 2 days ago by ghanbari.msc • 10 • updated 2 days ago by Michael Love ♦ 13k
0
votes
1
answer
69
views
1
answer
DESeq2 biological replicates and RIN values
rnaseq deseq2 differential gene expression covariates written 4 days ago by pmoranlosada • 0 • updated 2 days ago by Michael Love ♦ 13k
0
votes
1
answer
37
views
1
answer
[DESeq2] Slight difference between lfcMLE and my calculated log2 fold change
deseq2 written 3 days ago by Mike • 0 • updated 2 days ago by Michael Love ♦ 13k
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