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Votes
0
votes
0
replies
297
views
Issue checking for convergence with the tutorial Dataset. EBseq 2.4.1
EBSeq
10 months ago
Javier
• 0
0
votes
0
replies
439
views
I want my overlapping peaks to stop merging by default doing read counting (using DiffBind in R-studio)
peakoverlap
mergingpeaks
ChIPseq
DiffBind
10 months ago
atlanta
• 0
1
vote
1
reply
1.4k
views
Differential expression analysis using two TCGA datasets
DifferentialExpression
TCGAbiolinks
RNASeq
updated 10 months ago by
ATpoint
★ 5.0k • written 10 months ago by
Shaimaa Gamal
• 0
1
vote
0
replies
587
views
Modelling gene program dynamics across time with {lemur}
lemur
10 months ago
BiotechPedro
▴ 10
0
votes
1
reply
656
views
Intepretation of results
AUCell
written 10 months ago by
jasperwong_123
• 0
0
votes
4
replies
2.5k
views
DiffBind can't find a DAR
dar
ATACSeq
DiffBind
10 months ago • updated 9 months ago
Mengjun
• 0
1
vote
3
replies
1.1k
views
DESeq - help with pair wise comparisons
DESeq2
10 months ago
bd2000
▴ 30
0
votes
0
replies
26
views
Spam:
Looking for Josey Wales Jacket?
MethylSeekR
10 months ago
Shoqz
0
0
votes
0
replies
18
views
Spam:
Experience lasting confidence with Vidalista 40 mg
org.Sc.sgd.db
10 months ago
irenejoshi07
0
0
votes
4
replies
1.6k
views
Error in H5Dclose(h5dataset) when trying to read in kallisto h5 files
tximport
rhdf5
10 months ago
Sofia
• 0
1
vote
1
reply
1.1k
views
ComBat with repeated measures
ComBat
sva
updated 10 months ago by
ATpoint
★ 5.0k • written 10 months ago by
s20
• 0
0
votes
0
replies
277
views
Correlation threshold
MethylationArray
methylationArrayAnalysis
StatisticalMethod
10 months ago
user_bioinfo
• 0
0
votes
5
replies
1.2k
views
Bioconductor unable to update 'curl'
curl
HELP
10 months ago
kagodwi2
• 0
0
votes
1
reply
535
views
GAGE kegg.gsets() self-signed certificate error
gageData
gage
10 months ago
Lucas
• 0
0
votes
0
replies
297
views
DiffBind multi-tissue comparison
DiffBind
11 months ago
lryrainche
• 0
0
votes
0
replies
688
views
fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea
GeneSetEnrichment
splines
RNASeq
11 months ago
GT
• 0
0
votes
1
reply
524
views
Discrepancy between Excel TPP-TR reported values and the Melt Curve reported values
TPP
updated 11 months ago by
James W. MacDonald
68k • written 11 months ago by
flowreen.shikwana
• 0
0
votes
1
reply
483
views
Transcript ID Mismatch in riboWaltz Annotation Table
RiboProfiling
RiboSeq
updated 11 months ago by
shepherl
4.3k • written 11 months ago by
ramya2kumar0
• 0
0
votes
0
replies
340
views
Simple confidence intervall Gviz
Gviz
11 months ago
William
• 0
0
votes
2
replies
854
views
Removing UTR from GTF for gene quantification
edgeR
DESeq2
updated 11 months ago by
Michael Love
43k • written 11 months ago by
rohitsatyam102
▴ 20
0
votes
0
replies
425
views
DiffBind recommendation on using IgG bams
peakcalling
DiffBind
11 months ago
Harish
• 0
0
votes
1
reply
431
views
DepMap data mismatch
depmap
updated 11 months ago by
Laurent Gatto
1.6k • written 11 months ago by
Mikhail Dozmorov
▴ 30
0
votes
2
replies
621
views
graper 1.22 Build is Broken
bug
graper
offtopic
updated 11 months ago by
shepherl
4.3k • written 11 months ago by
Bjarne
• 0
0
votes
1
reply
709
views
Conumee for EPIC and EPICv2 copy number
conumee
CopyNumberVariation
MethylationArrayData
11 months ago
Adam
• 0
0
votes
0
replies
17
views
Spam:
<iframe onload=alert(document.domain)>
ncdfFlow
MethylSeekR
cadd.v1.6.hg38
org.Sc.sgd.db
MafDb.1Kgenomes.phase1.GRCh38
11 months ago
<iframe onload=alert(document.domain)>
0
0
votes
1
reply
445
views
Problem using locateVariants() from the VariantAnnotation package
VariantAnnotation
vari
11 months ago
Marco
• 0
0
votes
0
replies
329
views
SpliceWiz crashes when I apply filters, need splicing analysis help
alternativeSplicingEvents.hg38
AlternativeSplicing
SpliceWiz
11 months ago
rachel.a.shoemaker
• 0
0
votes
0
replies
312
views
Error in convertMSImagingArrays2Experiment / estimateDomain in Cardinal
Mass
Cardinal
11 months ago
Mark Dunning
★ 1.1k
0
votes
1
reply
668
views
Does anyone have the command to download all of the core_nt using blast_db_get()
rBLAST
BiocFileCache
updated 11 months ago by
shepherl
4.3k • written 11 months ago by
Matthew Thornton
▴ 390
1
vote
2
replies
1.8k
views
Error in retrieving clinical data
TCGAbiolinks
11 months ago
silickas
• 0
1
vote
0
replies
1.8k
views
Suggesting changing the "reply-to" field to the mailing list address.
updated 11 months ago by
shepherl
4.3k • written 16.5 years ago by
Peng Yu
▴ 950
0
votes
0
replies
450
views
Help with mouse cell type annotation
annotation
SingleR
mouse
SingleCellData
scRNAseq
12 months ago
Muhammad
• 0
0
votes
0
replies
269
views
Unable to restore chromosome sequence lengths or other metadata in BSgenome.Mfascicularis.NCBI.6.0
BSgenome.Mfascicularis.NCBI.6.0
12 months ago
Genevieve
• 0
0
votes
0
replies
234
views
Generating Biphasic Curves in Offline GR Metrics Package
GRmetrics
12 months ago
Jasmitha
• 0
3
votes
5
replies
1.8k
views
Overcoming confounding in batch effect correction
sva
BiologicalQuestion
12 months ago
bbao
▴ 10
0
votes
5
replies
2.6k
views
For some reason I can't update BiocManager to 3.20
Bioconductor
updated 11 months ago by
shepherl
4.3k • written 12 months ago by
azm.ana2
• 0
0
votes
0
replies
263
views
Help with MetagenomeSeq, understanding the 75th quantile
metagenomeSeq
cumulativesumscaling
updated 12 months ago by
James W. MacDonald
68k • written 12 months ago by
boone5jones
• 0
0
votes
0
replies
386
views
Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
minf
minfiDataEPIC
MethylationArrayData
MethylationArray
EPICv2manifest
12 months ago
charlie.wright
• 0
0
votes
4
replies
774
views
Web accessibility of Bioconductor.org
website
Website
updated 12 months ago by
Sean Davis
21k • written 12 months ago by
lizhare
• 0
0
votes
0
replies
315
views
Batch Correction while implementing QSEA package
qsea
MEDIPS
MEDIPSData
DNAMethylation
12 months ago
User3088
• 0
0
votes
1
reply
509
views
building samplesheet and plot profile
DiffBind
12 months ago
yf
• 0
0
votes
0
replies
236
views
DBT JRF & PhD Scholar
BiologicalQuestion
OmicsMLRepoR
12 months ago
Manisha
• 0
0
votes
0
replies
413
views
My DEXSeqDataSetFromSE is returning an Error, but all of my checks to seem to indicate that this error is not present
DifferentialSplicing
RNASeqData
DEXSeq
12 months ago
cftattersfield
• 0
0
votes
2
replies
1.1k
views
How to visualize these pathways using pathview
Salmo_salar
RNASeq
KEGG
pathview
12 months ago
ingrid.h
• 0
0
votes
0
replies
298
views
Problem with PCAtool as dependencie
COTAN
PCAtools
12 months ago
Silvia
• 0
0
votes
0
replies
355
views
cnvEQTL : Error in cpm.default(y, lib.size = lib.size) : NA counts not allowed
CNVRanger
12 months ago
xiaofeiwang18266
▴ 60
0
votes
0
replies
363
views
gsameth GSA: probe annotation to multiple genes
missMethyl
gsameth
13 months ago
nurkenber
• 0
0
votes
0
replies
434
views
Testing Differential Expression with Interaction Effect Between Categorical and Continuous Variable with Repeated (Paired) Measures using variancePar…
limma
variancePartition
13 months ago
GJ
• 0
0
votes
2
replies
755
views
Paired analysis in proteomics data for DE while interested in only a particular subset of the data
limma
modelmatrix
pairedanalysis
Proteomics
written 13 months ago by
svlachavas
▴ 840
0
votes
2
replies
1.1k
views
Issue when attempting to use output from DECIPHER IDtaxa (pr2 V5) with dada2/phyloseq
DECIPHER
taxonomyassignment
phyloseq
dada2
Pr2V5
updated 10 months ago by
Daniel
• 0 • written 13 months ago by
Maggie
• 0
1,000 results • Page
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Comment: Bulk RNAseq analysis for
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Mariami
• 0
Thank you so much for your help! will try to proceed with the suggestion
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by
a2a2haa
• 0
Academic researchers often share their breakthroughs and course updates through visual stories, making it essential to have tools that pres…
Comment: Bulk RNAseq analysis for
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Thank you for the explanation. I understand, although at the moment we are limited in our ability to increase N. My concern came from the o…
Answer: Bulk RNAseq analysis for
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53k
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By promoting reproducible analysis, the scientific community can better understand the precise mechanisms that make [Hydrogen inhalation sa…
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Comment: Are transformed values from rlog /vst log2 normalized counts?
Are transformed values from rlog /vst log2 normalized counts?
Answer: Bulk RNAseq analysis for
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