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EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation
MethylationArray
methylationArrayAnalysis
illumina
22 months ago
mikat
• 0
0
votes
3
replies
1.9k
views
An ESR essay about software design, and how it applies to Bioconductor
GUI
GUI
written 21.8 years ago by
Alex F. Bokov
▴ 50
1
vote
2
replies
2.5k
views
How to combine a bulk and pseudobulk dataset?
DESeq2
limma
RNASeq
RNASeqData
written 2.6 years ago by
informatician
• 0
0
votes
2
replies
1.4k
views
Problem with buildGOmap from clusterProfiler
clusterProfiler
22 months ago
mello-vieira
• 0
0
votes
2
replies
742
views
Pairwise analysis of DESeq result and limma result
DESeq2
limma
22 months ago
Lily Cheang
▴ 10
0
votes
4
replies
895
views
DESeq2 nomalize value
DESeq2
22 months ago
史哲
• 0
0
votes
4
replies
1.9k
views
Should I use the 'log2FoldChange' from lfcShrink() to subset significant DEGs?
lfcshrink
DESeq2
written 2.0 years ago by
Igor
• 0
0
votes
0
replies
575
views
What is the significance of DMR in DMRcate
DMRcate
22 months ago
chuanjiao6
• 0
0
votes
1
reply
688
views
Limitation on single file size and package size when developing Bioc package
packagedevelopment
datalimit
Bioconductor
updated 22 months ago by
Hervé Pagès
16k • written 22 months ago by
Xin Wang
• 0
2
votes
1
reply
778
views
Continuous variable to identify responder genes using DESeq2
DESeq2
rnaseqGene
DifferentialExpression
updated 22 months ago by
Michael Love
43k • written 22 months ago by
Abhishek Singh
▴ 20
7
votes
28
replies
8.7k
views
Rsubread::featureCounts extremely slow on some annotations
rsubread
featurecounts
updated 22 months ago by
Gordon Smyth
53k • written 10.8 years ago by
Ryan C. Thompson
★ 7.9k
0
votes
0
replies
457
views
HiCDCPlus differential interaction error
HiCDCPlus
22 months ago
Irene
• 0
0
votes
3
replies
1.1k
views
LOG2FC DESEQ2
DESeq2
updated 22 months ago by
Michael Love
43k • written 22 months ago by
ilaria.montali
• 0
0
votes
4
replies
3.6k
views
ChAMP - obtaining beta values using EPICv2 annotation
ChAMP
EPICv2
updated 13 months ago by
icecreamlover
• 0 • written 23 months ago by
ChunkyJones
• 0
2
votes
4
replies
1.2k
views
DEXSeq: summarizeOverlaps() crashes Rstudio with too many samples
DEXSeq
22 months ago
thomas.heigl.ibk
• 0
0
votes
4
replies
1.2k
views
DNABarcodes-Installation Issue
DNABarcodes
Install
23 months ago • updated 22 months ago
nk130
• 0
0
votes
0
replies
681
views
champ.load() from .idat files of GDC/TCGA dataset
TCGAbiolinks
ChAMP
22 months ago
Thalita
• 0
1
vote
4
replies
1.4k
views
goseq, warning and strange plot from nullp
goseq
23 months ago • updated 22 months ago
boczniak767
▴ 740
1
vote
1
reply
956
views
RSubread cellCounts - memory mapping error with NovoSeq but not NextSeq output
Rsubread
updated 21 months ago by
Yang Liao
▴ 450 • written 23 months ago by
Joe Marturano
▴ 10
0
votes
1
reply
627
views
How to control RAN-seq samples from different libraries
metaMSdata
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
jianyang.liu
• 0
0
votes
4
replies
1.0k
views
Ballgown error in scan for c.tab files
ballgown
RNASeq
23 months ago • updated 22 months ago
candacenewcome
• 0
0
votes
1
reply
444
views
unequal number of treatmets to control
DESeq2
updated 23 months ago by
Michael Love
43k • written 23 months ago by
shawaimuhyees
• 0
0
votes
2
replies
886
views
Batch effects removal across mRNA seq studies addressing different biological question: Best approach?
DESeq2
23 months ago
Kuldeep
• 0
0
votes
2
replies
859
views
PCA after DESeq2
DESeq2
PrincipalComponent
prin
DifferentialExpression
updated 23 months ago by
Michael Love
43k • written 23 months ago by
Shaimaa Gamal
• 0
1
vote
2
replies
1.0k
views
Longitudinal analysis in Limma
limma
23 months ago
COPD_Project
• 0
0
votes
0
replies
428
views
Postdoc
TCGAWorkflow
23 months ago
sameerahmadguru
• 0
0
votes
2
replies
888
views
DESeq2 lfcShrink drastic shrinkage
DESeq2
updated 8 months ago by
Nick
• 0 • written 23 months ago by
theophile
• 0
1
vote
1
reply
961
views
Transcript level expression for CCLE
recount3
recount
CCLE
updated 23 months ago by
Leonardo Collado Torres
★ 1.1k • written 23 months ago by
António Miguel de Jesus Domingues
▴ 510
6
votes
9
replies
4.2k
views
biomaRt has encountered an unknown server error.
biomaRt
host
useEnsembl
updated 23 months ago by
alexander3
• 0 • written 23 months ago by
Amparo
• 0
3
votes
3
replies
2.2k
views
plotUMAP Gene Set Faceted
scater
updated 23 months ago by
alan.ocallaghan
▴ 160 • written 23 months ago by
Dario Strbenac
★ 1.6k
0
votes
4
replies
1.5k
views
Adjusting featureCounts settings in Galaxy for miRNA overlaps
featureCounts
Rsubread
updated 23 months ago by
Gordon Smyth
53k • written 23 months ago by
tjgray4
• 0
4
votes
6
replies
1.7k
views
[BUG] Rsubread::featureCounts quirk in CORE files: different target list ordering for same target lists
featurecounts
Rsubread
23 months ago
isaac.vock
• 0
2
votes
2
replies
1.2k
views
Using limma for controlling age variable
linearmodeling
limma
23 months ago
Matej
• 0
1
vote
3
replies
1.2k
views
DESeq2 analysis on time-series RNA experiment
RNASeqData
DESeq2
RNASeq
23 months ago
island
• 0
1
vote
1
reply
714
views
Question about correction of confounders for EWAS
dss
DSS
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
chuanjiao6
• 0
0
votes
2
replies
2.3k
views
GO enrichment analysis does not show any pathways in my case
GO
EnrichmentBrowser
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
prity6459
• 0
4
votes
4
replies
977
views
edgeR - Design matrix for comparisons of all and subsets of samples
edgeR
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
Geo
• 0
0
votes
0
replies
1.3k
views
News:
Note about packages submitted for Bioconductor 3.19
Release
Submission
release
Bioconductor
23 months ago
shepherl
4.2k
0
votes
4
replies
1.4k
views
DESeq2 aborting after upgrade
DESeq2
23 months ago • updated 22 months ago
Aarti
• 0
2
votes
6
replies
5.4k
views
Looking for documentation about the use of "split = .sign" in enrichplot's dotplot
enrichplot
23 months ago • updated 22 months ago
Tobias
• 0
3
votes
2
replies
816
views
Question about DMRcate
DMRcate
dmrcate
23 months ago • updated 22 months ago
chuanjiao6
• 0
1
vote
1
reply
996
views
plotUMAP and ggplotly Cell IDs Display
scater
updated 23 months ago by
alan.ocallaghan
▴ 160 • written 23 months ago by
Dario Strbenac
★ 1.6k
0
votes
2
replies
875
views
Cross-species analysis using DESeq2 - size factor computation
dese
DESeq2
23 months ago • updated 22 months ago
pl23
• 0
6
votes
7
replies
1.3k
views
readDGE in edgeR giving me path names as sample names
edgeR
updated 23 months ago by
Gordon Smyth
53k • written 23 months ago by
aa.machado001
• 0
0
votes
2
replies
853
views
ConsensusClusterPlus dosesn't make an output file
ConsensusClusterPlus
RNASeqData
23 months ago
Diana
• 0
0
votes
1
reply
690
views
Annotatr Duplicate Entries
annotatr
AnnotationHub
written 23 months ago by
hayleyw
• 0
0
votes
0
replies
459
views
IlluminaHumanMethylation27kanno.ilmn12.hg19 package is mapped to hg18 genome
IlluminaHumanMethylation27kanno.ilmn12.hg19
23 months ago
Basti
▴ 780
2
votes
2
replies
755
views
News:
"Edit" button not working
Bioconductor
Website
SupportSite
written 23 months ago by
shepherl
4.2k
0
votes
0
replies
442
views
iSEE Difference Panel Missing
iSEEu
23 months ago
Dario Strbenac
★ 1.6k
1
vote
3
replies
1.2k
views
Big differences between biological replicates makes DESeq2 result 0
chipseq
DifferentialMethylation
DESeq2
updated 23 months ago by
Michael Love
43k • written 23 months ago by
rebw25
• 0
46,699 results • Page
33 of 934
Recent ...
Replies
Comment: EuroBioC2026 abstract submission is open!
by
TikTsokaasocissalpc
• 0
Submitting abstracts for EuroBioC2026 can be exciting but organizing ideas is key. A Random Word Generator [visit][1] can help create uniqu…
Comment: DESeq2 on non-RNASeq counts data
by
TikTsokaasocissalpc
• 0
In data analysis, behavior differences based on data type are common. Similarly, Best EDI Software adapts to non-standard transaction volum…
Comment: blockwiseModule crashes in the end and doesn't generate modules
by
gexose2839
• 0
Sounds good. @[time][1] [1]: https://timeduration.github.io
Comment: PFAM formats changed - is it still possible to use this with ISA?
by
TikTsokaasocissalpc
• 0
For mobile gaming enthusiasts, 3 Patti Lucky offers a seamless experience, unlike the frustration Harris faced with incompatible PFAM resul…
Answer: segfault in edgeR glmQLFit
by
Gordon Smyth
53k
Dear Mark, Thank you for providing a reproducible example. I confirm that I can reproduce the segfault myself on my own computer. The prob…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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★ 1.6k
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