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0
votes
0
answers
6
views
0
answers
DESeq2 outlier flagging with 2 replicates
deseq2 written 2 hours ago by stuart • 0
0
votes
1
answer
20
views
1
answer
Re-numbering blocking IDs on paired samples with duplicateCorrelation or design covariate
limma edger duplicatecorrelation batch effect written 8 hours ago by altintas.ali • 0 • updated 2 hours ago by Aaron Lun • 24k
0
votes
1
answer
61
views
1
answer
Time course experiment using limma with voom
limma voom rna seq time-course experiments written 2 days ago by mahes.muniandy • 0 • updated 2 hours ago by Aaron Lun • 24k
0
votes
1
answer
16
views
1
answer
differential expression between clusters (in distinct "treatments") in scRNAseq
limma scran scde scater sc3 written 10 hours ago by Bogdan • 550 • updated 2 hours ago by Aaron Lun • 24k
0
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0
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8
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0
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Question: DESeqDataSetFromMatrix error: dds file described as <Object with null pointers>
deseq2 written 3 hours ago by liujinghx • 0
0
votes
0
answers
7
views
0
answers
DESeqDataSetFromMatrix error: dds file described as <Object with null pointers>
deseq2 written 3 hours ago by liujinghx • 0
2
votes
2
answers
47
views
2
answers
Removing batch effect with limma::removeBatchEffect() actually exacerbates the effect
limma deseq2 written 12 hours ago by lech.kaczmarczyk • 10 • updated 7 hours ago by Gordon Smyth ♦ 37k
0
votes
0
answers
16
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0
answers
Tutorial: Differential Methylation Analysis using ChAMP
champ tutorial written 10 hours ago by learning.iq84 • 0
0
votes
1
answer
37
views
1
answer
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
microarray genefilter limma deseq2 written 14 hours ago by Jurat Shahidin • 60 • updated 7 hours ago by Gordon Smyth ♦ 37k
1
vote
1
answer
18
views
1
answer
Error in function classes fdef mtable unable to find an inherited method for function assay for signature function missing
deseq2 written 9 hours ago by rattray56 • 0 • updated 9 hours ago by Michael Love ♦ 24k
0
votes
1
answer
34
views
1
answer
WGCNA on methylation data
normalization wgcna dna methylation written 2 days ago by enora.fremy • 0 • updated 11 hours ago by Peter Langfelder • 2.1k
0
votes
1
answer
29
views
1
answer
DESeqDataSetFromTximport gives <Object with null pointer>
deseq2 software error written 13 hours ago by sweissmann • 0 • updated 11 hours ago by Michael Love ♦ 24k
0
votes
1
answer
21
views
1
answer
MSnbase addIdentificationData problem
software error msnbase written 14 hours ago by jd690764 • 0 • updated 13 hours ago by Laurent Gatto ♦ 1.1k
0
votes
1
answer
25
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1
answer
[DESeq2] sequin [ANAQUIN] correction, too many factors in model
deseq2 ruvseq anaquin sequins written 14 hours ago by chaitra.sathyaprakash • 0 • updated 14 hours ago by Michael Love ♦ 24k
0
votes
1
answer
76
views
1
answer
[DeSeq2] Developmental timeline across seasons with non-independent sampling
deseq2 written 22 hours ago by João Pimenta • 0
0
votes
1
answer
43
views
1
answer
Importing Salmon counts with tximport with host and virus genomes
salmon tximport written 21 hours ago by rbenel • 0 • updated 20 hours ago by Michael Love ♦ 24k
0
votes
1
answer
46
views
1
answer
Limma classical interaction model question
limma written 1 day ago by chris86 • 380 • updated 1 day ago by Gordon Smyth ♦ 37k
0
votes
1
answer
30
views
1
answer
[read.metharray] Trying to parse different IDAT files, of different size and type.
limma minfi written 1 day ago by researcher • 0 • updated 1 day ago by Gordon Smyth ♦ 37k
1
vote
1
answer
56
views
1
answer
minfi error in read.metharray
minfi methylation idat samplesheet written 6 weeks ago by researcher • 0 • updated 1 day ago by Gordon Smyth ♦ 37k
0
votes
1
answer
43
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1
answer
Killed 9 on macOS Mojave for Rsubread buildindex
rsubread buildindex killed 9 mojave written 2 days ago by raabec • 0 • updated 1 day ago by Wei Shi • 3.1k
0
votes
2
answers
43
views
2
answers
CRISPRseek:::findgRNAs paired gRNAs with PAM inward orientation
crisprseek paired grna written 1 day ago by saba.parvez • 0 • updated 1 day ago by Julie Zhu • 4.0k
0
votes
1
answer
59
views
1
answer
tximport discrepancy between TPMs and lengthScaledTPMs
tximport written 1 day ago by igor • 20 • updated 1 day ago by Michael Love ♦ 24k
4
votes
1
answer
54
views
1
answer
FCSTransTransform() implementation in flowCore
flowcore flow cytometry fcstrans written 1 day ago by Nik Tuzov • 70 • updated 1 day ago by Jake Wagner • 100
1
vote
1
answer
29
views
1
answer
What does SNPRelate::snpgdsDiss calculate?
snprelate written 1 day ago by grp2009 • 0 • updated 1 day ago by zhengx • 30
0
votes
2
answers
48
views
2
answers
DESeq2 log fold change
deseq2 written 1 day ago by bioinfo • 0 • updated 1 day ago by Michael Love ♦ 24k
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