0
votes
1
reply
478
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
434
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
288
views
Simple confidence intervall Gviz
Gviz
9 months ago William • 0
0
votes
2
replies
745
views
Removing UTR from GTF for gene quantification
edgeR DESeq2
updated 8 months ago by 43k • written 9 months ago by ▴ 20
0
votes
0
replies
369
views
DiffBind recommendation on using IgG bams
peakcalling DiffBind
9 months ago Harish • 0
0
votes
1
reply
373
views
DepMap data mismatch
depmap
updated 9 months ago by 1.6k • written 9 months ago by ▴ 30
0
votes
2
replies
523
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
491
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
385
views
Problem using locateVariants() from the VariantAnnotation package
VariantAnnotation vari
9 months ago Marco • 0
0
votes
0
replies
288
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
242
views
Error in convertMSImagingArrays2Experiment / estimateDomain in Cardinal
Mass Cardinal
9 months ago Mark Dunning ★ 1.1k
0
votes
1
reply
575
views
Does anyone have the command to download all of the core_nt using blast_db_get()
rBLAST BiocFileCache
updated 9 months ago by 4.2k • written 9 months ago by ▴ 390
1
vote
2
replies
1.5k
views
Error in retrieving clinical data
TCGAbiolinks
9 months ago silickas • 0
1
vote
0
replies
1.8k
views
Suggesting changing the "reply-to" field to the mailing list address.
updated 9 months ago by 4.2k • written 16.4 years ago by ▴ 950
0
votes
0
replies
409
views
Help with mouse cell type annotation
annotation SingleR mouse SingleCellData scRNAseq
9 months ago Muhammad • 0
0
votes
0
replies
212
views
Unable to restore chromosome sequence lengths or other metadata in BSgenome.Mfascicularis.NCBI.6.0
BSgenome.Mfascicularis.NCBI.6.0
9 months ago Genevieve • 0
0
votes
0
replies
196
views
Generating Biphasic Curves in Offline GR Metrics Package
GRmetrics
9 months ago Jasmitha • 0
3
votes
5
replies
1.6k
views
Overcoming confounding in batch effect correction
sva BiologicalQuestion
9 months ago bbao ▴ 10
0
votes
5
replies
1.8k
views
For some reason I can't update BiocManager to 3.20
Bioconductor
updated 9 months ago by 4.2k • written 9 months ago by • 0
0
votes
0
replies
221
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
353
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
698
views
Web accessibility of Bioconductor.org
website Website
updated 10 months ago by 21k • written 10 months ago by • 0
0
votes
0
replies
285
views
Batch Correction while implementing QSEA package
qsea MEDIPS MEDIPSData DNAMethylation
10 months ago User3088 • 0
0
votes
1
reply
452
views
building samplesheet and plot profile
DiffBind
10 months ago yf • 0
0
votes
0
replies
204
views
DBT JRF & PhD Scholar
BiologicalQuestion OmicsMLRepoR
10 months ago Manisha • 0
0
votes
0
replies
353
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
908
views
How to visualize these pathways using pathview
Salmo_salar RNASeq KEGG pathview
10 months ago • updated 9 months ago ingrid.h • 0
0
votes
0
replies
250
views
Problem with PCAtool as dependencie
COTAN PCAtools
10 months ago Silvia • 0
0
votes
0
replies
295
views
cnvEQTL : Error in cpm.default(y, lib.size = lib.size) : NA counts not allowed
CNVRanger
10 months ago xiaofeiwang18266 ▴ 60
0
votes
0
replies
323
views
gsameth GSA: probe annotation to multiple genes
missMethyl gsameth
10 months ago nurkenber • 0
0
votes
0
replies
382
views
Testing Differential Expression with Interaction Effect Between Categorical and Continuous Variable with Repeated (Paired) Measures using variancePar…
limma variancePartition
10 months ago GJ • 0
0
votes
2
replies
676
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
912
views
Issue when attempting to use output from DECIPHER IDtaxa (pr2 V5) with dada2/phyloseq
DECIPHER taxonomyassignment phyloseq dada2 Pr2V5
updated 8 months ago by • 0 • written 11 months ago by • 0
0
votes
0
replies
350
views
Trouble with double delimiters in .fcs file (flowCore package)
flowCore FlowCytometry FlowCytometryData
11 months ago vpochic • 0
0
votes
1
reply
655
views
ChAMP.DMR error - Error in makeGenomicRatioSetFromMatrix
ChAMP
updated 11 months ago by • 0 • written 11 months ago by • 0
0
votes
1
reply
298
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
289
views
Confidence interval contains 0 but p<0.05
MAST
12 months ago Adelyn • 0
0
votes
0
replies
429
views
Pathway abundance data from Curatedmetagenomics
curatedMetagenomicData ExperimentHubData
12 months ago Edward • 0
1
vote
4
replies
924
views
pathview - multiple states
pathview Pathways KEGG
12 months ago Philippine • 0
0
votes
5
replies
756
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
1.8k
views
how to apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
DMRcate minfi
12 months ago • updated 9 months ago xiaofeiwang198266 • 0
0
votes
1
reply
500
views
rrvgo::calculateSimMatrix() error
rrvgo
updated 12 months ago by • 0 • written 12 months ago by • 0
0
votes
0
replies
376
views
Lipidomics Barplot: raw values or non-log, lipidr-normalized values?
Normalization Lipidomics lipidr
12 months ago David R ▴ 90
0
votes
1
reply
708
views
WGCNA with TPM tables
RNASeq WGCNA ComparativeGenomics
updated 12 months ago by ★ 5.0k • written 12 months ago by • 0
0
votes
1
reply
431
views
eRNAs count
RNASeq DESeq2
updated 12 months ago by ★ 5.0k • written 12 months ago by • 0
0
votes
0
replies
457
views
WGCNA module preservation using only adjacency matrix
WGCNA
13 months ago yang1641 • 0
0
votes
0
replies
274
views
ChemmineOB avaiable for macOS Binary (arm64)?
ChemmineOB
13 months ago Simone • 0
1,000 results • Page 2 of 20
Recent ...
Replies
Comment: DECIPHER DesignProbes unable to design FISH-probes by Erik Wright ▴ 150
Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Answer: PTM analysis in LIMPA by Gordon Smyth 53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
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 James W. MacDonald 68k
Popular Question to Gordon Smyth 53k
Commentator to sina.nassiri ▴ 130
Popular Question to Hervé Pagès 16k
Popular Question to jared.andrews07 ▴ 30
Locations • All
United States, 7 minutes ago
United States, 10 minutes ago
WEHI, Melbourne, Australia, 4 hours ago
The city by the bay, 5 hours ago
Seattle, WA, United States, 5 hours ago
Traffic: 1190 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