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467
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IlluminaHumanMethylation27kanno.ilmn12.hg19 package is mapped to hg18 genome
IlluminaHumanMethylation27kanno.ilmn12.hg19
23 months ago
Basti
▴ 780
2
votes
2
replies
759
views
News:
"Edit" button not working
Bioconductor
Website
SupportSite
written 23 months ago by
shepherl
4.2k
0
votes
0
replies
446
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
1
vote
3
replies
1.4k
views
Comparing relative expression of a conserved gene between distantly related species.
ComparativeGenomics
Normalization
RNASeq
DESeq2
written 23 months ago by
georgii.vdovin
• 0
4
votes
1
reply
1.9k
views
When should I correct for batch effects
BatchEffect
SingleCellExperiment
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
NeuroDaniel
▴ 20
0
votes
2
replies
1.9k
views
Regressing out covariates from expression matrix for PCA visualization - can I use coefficients calculated in DESeq2??
DESeq2
23 months ago
tombate94
• 0
1
vote
8
replies
1.6k
views
edgeR error "Design matrix not of full rank"
edgeR
methylation
updated 23 months ago by
Gordon Smyth
53k • written 23 months ago by
sat
• 0
0
votes
1
reply
1.1k
views
Extracting binding matrix with raw counts from DiffBind in ATAC-seq data not working
DiffBind
ATACSeq
23 months ago
isaromero8888
• 0
0
votes
1
reply
1.5k
views
ClusterProfiler result question: Why are all many of my resulting p.adjust values the same???
clusterProfiler
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
Max
• 0
0
votes
0
replies
768
views
News:
2024 May Institute on computation and statistics for mass spectrometry and proteomics
MSstats
MSstatsTMT
MSstatsShiny
MSstatsPTM
23 months ago
kohler.d
• 0
0
votes
3
replies
1.0k
views
Interaction tests and paired interaction tests in swish
swish
salmon
fishpond
updated 23 months ago by
Michael Love
43k • written 23 months ago by
Nicholas
• 0
0
votes
1
reply
688
views
Error in GDCRNATools
ceRNA
GDCRNATools
RNASeq
updated 23 months ago by
Ram
▴ 220 • written 23 months ago by
Matvii Mykhailichenko
• 0
0
votes
1
reply
989
views
visualizing GSEA showCategory question
enrichplot
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
Grace.Ciabattoni
• 0
0
votes
1
reply
1.2k
views
WGCNA Soft Power
Normalization
DESeq2
Network
RNASeqData
updated 23 months ago by
ATpoint
★ 5.0k • written 23 months ago by
Ömür Koray
• 0
0
votes
2
replies
944
views
TCGA-GBM subtype tumor
curatedTCGAData
updated 23 months ago by
Marcel Ramos
700 • written 23 months ago by
vicmonm5
• 0
0
votes
0
replies
619
views
clusterSweep Warning k Capped
bluster
23 months ago
Dario Strbenac
★ 1.6k
0
votes
1
reply
745
views
Dimensionality reduction visualization
imcRtools
SingleCellData
imcdatasets
SpatialWorkflow
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
Simon
• 0
1
vote
2
replies
1.2k
views
Problems with Feature counting
Rsubread
BAMfiles
GTFfile
23 months ago
mirjanakessler
• 0
0
votes
0
replies
968
views
Which normalization should I do use for ATAC Seq using DiffBind
DiffBind
edgeR
ATACSeq
DESeq2
23 months ago
Jawahar
• 0
2
votes
4
replies
2.4k
views
Does EdgeR trimmed mean of M values (TMM) account for gene length?
Normalization
edgeR
RNASeq
23 months ago
Sabiha
▴ 20
0
votes
2
replies
863
views
Which fasta files to use for tximeta makeLinkTxome
tximeta
DESeq2
23 months ago
JING
• 0
5
votes
6
replies
1.6k
views
Monotonic genes in results of differential gene expression analysis
DifferentialExpression
rnaseqGene
RNASeqData
23 months ago
Shaimaa Gamal
• 0
0
votes
1
reply
547
views
DESEQ2 reduced model input into Pathfindr
DESeq2
updated 23 months ago by
Michael Love
43k • written 23 months ago by
a.raftery.1
• 0
0
votes
1
reply
790
views
Behavior of most genes in Ribosome-footprints dataset deviates from expected
DESeq2
timecourse
time
updated 23 months ago by
Michael Love
43k • written 23 months ago by
Anastasiia
• 0
2
votes
2
replies
1.1k
views
Deleting a column from data frame and then running DESeq2
DESeq2
updated 23 months ago by
Michael Love
43k • written 23 months ago by
amv112
▴ 10
0
votes
2
replies
1.9k
views
Plotting mean TPM of an expressed gene
DESeq2
23 months ago
mp52226
• 0
0
votes
1
reply
892
views
Running Deseq2 with all samples vs samples for each comparison separately
RNA
DESeq2
updated 23 months ago by
Michael Love
43k • written 23 months ago by
manuel
• 0
4
votes
6
replies
1.6k
views
Merging of Human and Mouse SingleCellExperiment Objects Error
SingleCellExperiment
23 months ago
Dario Strbenac
★ 1.6k
0
votes
3
replies
1.3k
views
EdgeR for methylation analysis when there is no replicates
RRBSdata
edgeR
updated 23 months ago by
Gordon Smyth
53k • written 23 months ago by
annasoudi
• 0
0
votes
0
replies
546
views
How to search for a string in a DNAStringSet dataset?
Biostrings
23 months ago
Angela Michalichyn
• 0
0
votes
0
replies
553
views
rpk per cell saved in SCE object.
SingleCellExperiment
23 months ago
JalapenoCornbread
• 0
0
votes
0
replies
622
views
Parameter bSubControl with no effect in DiffBind dba.count?
bSubControl
ChIPSeq
DiffBind
23 months ago
frueher
• 0
3
votes
3
replies
2.0k
views
EdgeR: Should I include all samples/conditions in my dispersion estimation while only testing for certain contrasts
edgeR
updated 23 months ago by
Gordon Smyth
53k • written 23 months ago by
Jurgen
• 0
2
votes
17
replies
4.4k
views
Problem installing package, version of dependency issue
AnnotationDbi
GO.db
updated 23 months ago by
Lluís Revilla Sancho
▴ 760 • written 23 months ago by
alexandre.blais
▴ 50
0
votes
1
reply
619
views
[DESEQ2] When to average biological replicates for hierarchical clustering
DESeq2
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
E
• 0
2
votes
2
replies
636
views
How to interpret log2fold values when using numeric contrasts in DESEQ2?
DESeq2
23 months ago
pl23
• 0
1
vote
1
reply
2.2k
views
Error with biomaRt
biomaRt
updated 23 months ago by
Mike Smith
★ 6.6k • written 23 months ago by
goldenboy
• 0
2
votes
2
replies
797
views
How to contact Bioconductor's test host?
Bioconductor
updated 23 months ago by
Hervé Pagès
16k • written 23 months ago by
Marek Gierlinski
▴ 30
4
votes
2
replies
1.4k
views
Enrichement with clusterProfiler and biomart
biomaRt
clusterProfiler
Zea_mays
updated 23 months ago by
Guido Hooiveld
★ 4.1k • written 23 months ago by
sansan
• 0
1
vote
3
replies
903
views
makeOrgPackageFromNCBI generates an empty database?
OrganismDbi
makeOrgPackageFromNCBI
updated 23 months ago by
James W. MacDonald
68k • written 23 months ago by
dissikratzl
• 0
2
votes
2
replies
1.6k
views
biomaRt error message: Error in textConnection(bmResult) : invalid 'text' argument
biomaRt
23 months ago
bd2000
▴ 30
0
votes
4
replies
2.8k
views
Bioconductor installation
Bioconductor
written 24 months ago by
Akhil
• 0
0
votes
3
replies
1.5k
views
scran package: quickCluster and calculateSumFactors parallelization
BiocParallel
scran
updated 23 months ago by
ATpoint
★ 5.0k • written 24 months ago by
qwang178
• 0
0
votes
3
replies
1.5k
views
Cannot use findOverlaps with 2 GInteractions objects with different ranges.
InteractionSet
GInteractions
24 months ago • updated 23 months ago
Sarah
▴ 10
4
votes
6
replies
1.7k
views
filtering lowly expressed reads
RNASeq
limma
DifferentialExpression
Preprocessing
updated 23 months ago by
Gordon Smyth
53k • written 23 months ago by
Shaimaa Gamal
• 0
0
votes
0
replies
560
views
RFC: significant changes to ensemblVEP package
VariantAnnotation
ensemblVEP
23 months ago
Vincent J. Carey, Jr.
6.7k
3
votes
1
reply
936
views
Dataset imbalance
RNASeq
DifferentialExpression
RnaSeqSampleSizeData
RnaSeqSampleSize
updated 23 months ago by
Gordon Smyth
53k • written 24 months ago by
Shaimaa Gamal
• 0
0
votes
0
replies
571
views
Errror in running EdgeR based differential analysis in diffbind
DiffBind
24 months ago
Aswathy
• 0
1
vote
1
reply
704
views
Looking for a MSigDB chip file
DESeq2
updated 24 months ago by
James W. MacDonald
68k • written 24 months ago by
Katherine
• 0
46,703 results • Page
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