0
votes
5
replies
910
views
Bioconductor unable to update 'curl'
curl HELP
9 months ago kagodwi2 • 0
0
votes
4
replies
2.4k
views
Ensembl site unresponsive via biomaRt
biomaRt
updated 8 months ago by • 0 • written 9 months ago by • 0
0
votes
1
reply
503
views
GAGE kegg.gsets() self-signed certificate error
gageData gage
9 months ago Lucas • 0
0
votes
0
replies
264
views
DiffBind multi-tissue comparison
DiffBind
9 months ago lryrainche • 0
0
votes
0
replies
491
views
fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea GeneSetEnrichment splines RNASeq
9 months ago GT • 0
0
votes
1
reply
487
views
Discrepancy between Excel TPP-TR reported values and the Melt Curve reported values
TPP
updated 9 months ago by 68k • written 9 months ago by • 0
0
votes
1
reply
443
views
Transcript ID Mismatch in riboWaltz Annotation Table
RiboProfiling RiboSeq
updated 9 months ago by 4.2k • written 9 months ago by • 0
0
votes
0
replies
297
views
Simple confidence intervall Gviz
Gviz
9 months ago William • 0
0
votes
2
replies
762
views
Removing UTR from GTF for gene quantification
edgeR DESeq2
updated 9 months ago by 43k • written 9 months ago by ▴ 20
0
votes
0
replies
377
views
DiffBind recommendation on using IgG bams
peakcalling DiffBind
9 months ago Harish • 0
0
votes
1
reply
383
views
DepMap data mismatch
depmap
updated 9 months ago by 1.6k • written 9 months ago by ▴ 30
0
votes
2
replies
536
views
graper 1.22 Build is Broken
bug graper offtopic
updated 9 months ago by 4.2k • written 9 months ago by • 0
0
votes
1
reply
528
views
Conumee for EPIC and EPICv2 copy number
conumee CopyNumberVariation MethylationArrayData
9 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
9 months ago <iframe onload=alert(document.domain)> 0
0
votes
1
reply
393
views
Problem using locateVariants() from the VariantAnnotation package
VariantAnnotation vari
9 months ago Marco • 0
0
votes
0
replies
299
views
SpliceWiz crashes when I apply filters, need splicing analysis help
alternativeSplicingEvents.hg38 AlternativeSplicing SpliceWiz
9 months ago rachel.a.shoemaker • 0
0
votes
0
replies
258
views
Error in convertMSImagingArrays2Experiment / estimateDomain in Cardinal
Mass Cardinal
10 months ago Mark Dunning ★ 1.1k
0
votes
1
reply
597
views
Does anyone have the command to download all of the core_nt using blast_db_get()
rBLAST BiocFileCache
updated 10 months ago by 4.2k • written 10 months ago by ▴ 390
1
vote
2
replies
1.6k
views
Error in retrieving clinical data
TCGAbiolinks
10 months ago • updated 9 months ago silickas • 0
1
vote
0
replies
1.8k
views
Suggesting changing the "reply-to" field to the mailing list address.
updated 10 months ago by 4.2k • written 16.4 years ago by ▴ 950
0
votes
0
replies
417
views
Help with mouse cell type annotation
annotation SingleR mouse SingleCellData scRNAseq
10 months ago Muhammad • 0
0
votes
0
replies
220
views
Unable to restore chromosome sequence lengths or other metadata in BSgenome.Mfascicularis.NCBI.6.0
BSgenome.Mfascicularis.NCBI.6.0
10 months ago Genevieve • 0
0
votes
0
replies
202
views
Generating Biphasic Curves in Offline GR Metrics Package
GRmetrics
10 months ago Jasmitha • 0
3
votes
5
replies
1.6k
views
Overcoming confounding in batch effect correction
sva BiologicalQuestion
10 months ago bbao ▴ 10
0
votes
5
replies
1.9k
views
For some reason I can't update BiocManager to 3.20
Bioconductor
updated 10 months ago by 4.2k • written 10 months ago by • 0
0
votes
0
replies
229
views
Help with MetagenomeSeq, understanding the 75th quantile
metagenomeSeq cumulativesumscaling
updated 10 months ago by 68k • written 10 months ago by • 0
0
votes
0
replies
360
views
Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
minf minfiDataEPIC MethylationArrayData MethylationArray EPICv2manifest
10 months ago charlie.wright • 0
0
votes
4
replies
704
views
Web accessibility of Bioconductor.org
website Website
updated 10 months ago by 21k • written 10 months ago by • 0
0
votes
0
replies
292
views
Batch Correction while implementing QSEA package
qsea MEDIPS MEDIPSData DNAMethylation
10 months ago User3088 • 0
0
votes
1
reply
465
views
building samplesheet and plot profile
DiffBind
10 months ago yf • 0
0
votes
0
replies
208
views
DBT JRF & PhD Scholar
BiologicalQuestion OmicsMLRepoR
10 months ago Manisha • 0
0
votes
0
replies
361
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
10 months ago cftattersfield • 0
0
votes
2
replies
936
views
How to visualize these pathways using pathview
Salmo_salar RNASeq KEGG pathview
10 months ago ingrid.h • 0
0
votes
0
replies
256
views
Problem with PCAtool as dependencie
COTAN PCAtools
11 months ago Silvia • 0
0
votes
0
replies
308
views
cnvEQTL : Error in cpm.default(y, lib.size = lib.size) : NA counts not allowed
CNVRanger
11 months ago xiaofeiwang18266 ▴ 60
0
votes
0
replies
326
views
gsameth GSA: probe annotation to multiple genes
missMethyl gsameth
11 months ago nurkenber • 0
0
votes
0
replies
391
views
Testing Differential Expression with Interaction Effect Between Categorical and Continuous Variable with Repeated (Paired) Measures using variancePar…
limma variancePartition
11 months ago GJ • 0
0
votes
2
replies
686
views
Paired analysis in proteomics data for DE while interested in only a particular subset of the data
limma modelmatrix pairedanalysis Proteomics
written 11 months ago by ▴ 840
0
votes
2
replies
928
views
Issue when attempting to use output from DECIPHER IDtaxa (pr2 V5) with dada2/phyloseq
DECIPHER taxonomyassignment phyloseq dada2 Pr2V5
updated 9 months ago by • 0 • written 11 months ago by • 0
0
votes
0
replies
367
views
Trouble with double delimiters in .fcs file (flowCore package)
flowCore FlowCytometry FlowCytometryData
11 months ago vpochic • 0
0
votes
1
reply
675
views
ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
ChAMP
updated 11 months ago by • 0 • written 12 months ago by • 0
0
votes
1
reply
309
views
Errors running learn.bn function from Pigengene in windows environment
Pigengene
written 12 months ago by • 0
0
votes
0
replies
10
views
Spam: Best Hotels In Maui
prebs
12 months ago 2zrcj3448p 0
0
votes
7
replies
1.3k
views
DESeq2: Gene is DEG in one experiment but not in the other depite similar baseMean, L2FC, ...
DESeq2
updated 12 months ago by • 0 • written 12 months ago by • 0
0
votes
0
replies
293
views
Confidence interval contains 0 but p<0.05
MAST
12 months ago Adelyn • 0
0
votes
0
replies
443
views
Pathway abundance data from Curatedmetagenomics
curatedMetagenomicData ExperimentHubData
12 months ago Edward • 0
1
vote
4
replies
947
views
pathview - multiple states
pathview Pathways KEGG
12 months ago Philippine • 0
0
votes
5
replies
765
views
fail to use addPerROIQC in Rmd
stand standR
updated 12 months ago by • 0 • written 12 months ago by • 0
4
votes
8
replies
1.9k
views
how to apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
DMRcate minfi
12 months ago • updated 10 months ago xiaofeiwang198266 • 0
0
votes
1
reply
517
views
rrvgo::calculateSimMatrix() error
rrvgo
updated 12 months ago by • 0 • written 12 months ago by • 0
1,000 results • Page 2 of 20
Recent ...
Replies
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k
I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in by jtsy6383 • 0
Thanks for the reply Gordon. I am also working on the project and have been tasked to reformulate and add some details. We're interested i…
Answer: How does contrasts.fit do in limma to extract comparisons with a model having in by Gordon Smyth 53k
The limma Users Guide explains how to test for interactions or to test for contrasts very easily. limma can work with any design matrix, bu…
Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
Comment: How can I correctly use phyloseq with Docker? by fnfgame • 0
In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
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
Awards • All
Popular Question to Istvan Albert ▴ 50
Popular Question to Dario Strbenac ★ 1.6k
Scholar to Nikos Ignatiadis ▴ 180
Popular Question to Robert • 0
Popular Question to lamia11me • 0
Locations • All
United States, 16 minutes ago
Brazil, 16 minutes ago
The city by the bay, 23 minutes ago
Seattle, WA, United States, 1 hour ago
France, 2 hours ago
Traffic: 864 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6