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0
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0
replies
6
views
The 'Home' shows:An error has occurred. Check your logs or contact the app author for clarification.
Reports
20 minutes ago
315005358
• 0
0
votes
0
replies
16
views
Error in termSig <= adjs.cutOff when using topGO ks + elim
topGO
10 hours ago
adendekk
• 0
0
votes
1
reply
50
views
error
Biobase
13 hours ago
NATASHA
• 0
0
votes
1
reply
57
views
Differential gene expression analysis results
DESeq2
DifferentialExpression
updated 23 hours ago by
ATpoint
★ 4.1k • written 23 hours ago by
sajadahmad41454
• 0
1
vote
2
replies
164
views
Multi-factorial, longitudinal disease progression analysis with unbalanced patient sampling - duplicateCorrelation or blocking?
rna-seq
duplicateCorrelation
limma
voom
2 days ago • updated 1 day ago
Dylan.Sheerin
• 0
0
votes
0
replies
28
views
Recommendations on deploying cytoviewer shiny.appobj to shinyapps.io?
cytoviewer
ShinyApps
1 day ago
neilzhao
▴ 30
1
vote
0
replies
267
views
News:
Nominations for Bioconductor Awards 2024! Deadline May 15
Recognition
Awards
Bioconductor
Bioc204
7 weeks ago • updated 1 day ago
shepherl
3.9k
0
votes
1
reply
54
views
normalization using Deseq2
DESeq2
rnaseqGene
Normalization
updated 1 day ago by
ATpoint
★ 4.1k • written 1 day ago by
sajadahmad41454
• 0
3
votes
4
replies
454
views
Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it does not happen in Linux
GenomAutomorphism
updated 2 days ago by
Mike Smith
★ 6.5k • written 5 days ago by
robersy
• 0
2
votes
6
replies
209
views
deseq2 results
DESeq2
DifferentialExpression
rnaseqGene
DifferentialRegulation
updated 8 hours ago by
swbarnes2
★ 1.4k • written 2 days ago by
sajadahmad41454
• 0
0
votes
0
replies
34
views
Treeio as.treedata function seq lenght error
treeio
3 days ago
nromerov
• 0
1
vote
1
reply
129
views
error in limma , contrast.matrix Number of rows of contrast matrix must match number of coefficients in fit
limma
updated 3 days ago by
James W. MacDonald
65k • written 3 days ago by
zzrammal
• 0
3
votes
10
replies
286
views
Extremely small p-values using Limma for proteomic data
Proteomics
limma
updated 18 hours ago by
James W. MacDonald
65k • written 3 days ago by
Abbey
• 0
1
vote
1
reply
106
views
minfi latest update for EPIC V2 chip
minfi
minfiDataEPIC
updated 3 days ago by
James W. MacDonald
65k • written 4 days ago by
e1271094
• 0
0
votes
1
reply
66
views
Recovering my account credentials on Bioconductor
Bioconductor
updated 3 days ago by
shepherl
3.9k • written 3 days ago by
cyril.dalmasso
• 0
0
votes
0
replies
51
views
need help with Diffbind multiple groups
DiffBind
ChIPSeqData
4 days ago
Dinesh
• 0
3
votes
5
replies
220
views
Help with running egsea()
EGSEA
4 days ago • updated 3 days ago
Chris
• 0
3
votes
1
reply
107
views
How to save the DEXSeq results
DEXSeq
updated 4 days ago by
Michael Love
42k • written 4 days ago by
Sara
• 0
3
votes
4
replies
235
views
Method to find pathways different between 2 groups
fgsea
GSVA
CAMERA
updated 3 days ago by
Gordon Smyth
50k • written 5 days ago by
Chris
• 0
0
votes
3
replies
145
views
Couldn't connect to server while using "pathways"
graphite
updated 4 days ago by
Michael Love
42k • written 5 days ago by
fduguchunhui
• 0
1
vote
1
reply
100
views
Trim/Filter out-of-bounds GRanges
GenomicRanges
updated 4 days ago by
Michael Love
42k • written 4 days ago by
mat149
▴ 70
1
vote
1
reply
146
views
Handling multiple differential expression comparisons
DESeq2
updated 5 days ago by
Michael Love
42k • written 7 days ago by
Zainab
▴ 10
2
votes
2
replies
185
views
fgsea significant result
fgsea
6 days ago • updated 5 days ago
Chris
• 0
0
votes
40
replies
2.9k
views
How to use bootRanges to bootstrap small RNA loci (nullranges package)
bootRanges
nullranges
updated 18 hours ago by
Michael Love
42k • written 15 months ago by
Poonam
• 0
0
votes
6
replies
247
views
Once again a "Model matrix not full rank"
DESeq2
design
coldata
updated 7 days ago by
swbarnes2
★ 1.4k • written 8 days ago by
arfranco
▴ 130
1
vote
2
replies
359
views
limma Intercept vs No-intercept models completely changing DMR results?
limma
DMRcate
MethylationArray
EPICV2
updated 7 days ago by
Gordon Smyth
50k • written 7 days ago by
Kim
• 0
2
votes
3
replies
207
views
package goseq seems to be not available on the latest version of R
goseq
updated 4 days ago by
Gordon Smyth
50k • written 7 days ago by
Patrycja
▴ 20
2
votes
3
replies
209
views
Too many significant genes when integrating gtex and tcga
RNA-seq
DESeq2
updated 5 days ago by
ATpoint
★ 4.1k • written 7 days ago by
Reza
• 0
0
votes
0
replies
92
views
dba.plotProfile() plotting and interpretation
DiffBind
7 days ago
Henry
▴ 10
0
votes
1
reply
144
views
NEED FOR NESSASORY HELP
RNASeqData
edgeR
updated 8 days ago by
Gordon Smyth
50k • written 8 days ago by
z_bahari
• 0
0
votes
1
reply
126
views
Gene-by-sample covariates in limma
Metabolomics
limma
updated 8 days ago by
Gordon Smyth
50k • written 8 days ago by
c53aba27
• 0
4
votes
2
replies
580
views
Why does GSEA on edgeR results for randomized samples give highly significant p-values?
fgsea
edgeR
8 days ago • updated 4 days ago
gene_bioconductor
▴ 10
0
votes
0
replies
73
views
flowStats for CyTOF
flowStats
8 days ago
tholmes
• 0
0
votes
2
replies
129
views
DESeq2 v1.35.0
DESeq2
updated 8 days ago by
Michael Love
42k • written 8 days ago by
Espresso
• 0
0
votes
0
replies
67
views
DiffBind: no peaks in DBA object
DiffBind
macs2
chipseq
8 days ago
yvonneh
• 0
0
votes
0
replies
62
views
How to create consensus peak sets for each group to use in DiffBind?
DiffBind
8 days ago
Ian D.
▴ 70
0
votes
1
reply
101
views
Job:
Postdoctoral Position in Bioinformatics - Mainz, Germany
JobPosting
written 8 days ago by
4r-rtg
• 0
0
votes
3
replies
201
views
More regions in union when increasing DBA$config$mergeOverlap
DiffBind
9 days ago • updated 2 days ago
Ian D.
▴ 70
0
votes
2
replies
170
views
Deseq2 and Normalization of RNA sequencing data
DESeq2
9 days ago • updated 8 days ago
kcarey
• 0
0
votes
3
replies
173
views
Differences in differential analysis methods for RNA-Seq
DESeq2
StatisticalMethod
Proteomics
DifferentialExpression
RNASeq
updated 8 days ago by
ATpoint
★ 4.1k • written 9 days ago by
james.zhang20
• 0
1
vote
3
replies
262
views
Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call when trying to subset pheatmap
DESeq2
updated 3 days ago by
ATpoint
★ 4.1k • written 9 days ago by
angelathuynh5
• 0
4
votes
0
replies
105
views
News:
Bioconductor 3.19 is Released!
Release
Bioconductor
Packages
Software
9 days ago
shepherl
3.9k
0
votes
0
replies
117
views
Empty table plot using plotGseaTable()
fgsea
9 days ago • updated 7 days ago
Chris
• 0
0
votes
3
replies
187
views
Store output of matchPWM()
biostrings
Biostrings
updated 9 days ago by
James W. MacDonald
65k • written 9 days ago by
mat149
▴ 70
0
votes
3
replies
269
views
log2FoldChange value is way too different when compared with counts(dds)
DESeq2
updated 9 days ago by
Michael Love
42k • written 10 days ago by
HAK
• 0
1
vote
2
replies
254
views
Get genomic coordinates of CpGs sites (chromosomes, genomic position)
GenomeWideAssociation
SequenceAnnotation
MethylationArray
GenomicDistributionsData
10 days ago • updated 9 days ago
Yveto
• 0
8
votes
7
replies
1.8k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq
rnaseq
updated 4 days ago by
Sara
• 0 • written 6.7 years ago by
Sylvain Foisy
▴ 80
0
votes
1
reply
243
views
How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
CopyNumberPlots
HMMcopy
CopyNumberVariation
updated 10 days ago by
James W. MacDonald
65k • written 11 days ago by
SSSJec
• 0
3
votes
4
replies
237
views
Help with error using camera() in limma
CAMERA
limma
10 days ago
Chris
• 0
1
vote
1
reply
134
views
Fold change calculation in Diffbind vs. DESEQ2?
DiffBind
ChIPSeqData
DESeq2
updated 10 days ago by
Michael Love
42k • written 10 days ago by
marcusn
• 0
198 results • Page
1 of 4
Recent ...
Replies
Comment: deseq2 results
by
swbarnes2
★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code?
by
NATASHA
• 0
did you find a solution? I´m having the same problem
Comment: error
by
NATASHA
• 0
Please ignore, i didnt copy all the scrip
Comment: Extremely small p-values using Limma for proteomic data
by
James W. MacDonald
65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
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