1
vote
1
reply
1.7k
views
Origin of the labels for the SingleCellMultiModal dataset
labels PBMC SingleCellMultiModal 10X
updated 8 months ago by ★ 5.0k • written 8 months ago by • 0
0
votes
4
replies
2.4k
views
DiffBind can't find a DAR
dar ATACSeq DiffBind
8 months ago Mengjun • 0
1
vote
3
replies
1.1k
views
DESeq - help with pair wise comparisons
DESeq2
8 months ago bd2000 ▴ 30
0
votes
0
replies
26
views
Spam: Looking for Josey Wales Jacket?
MethylSeekR
8 months ago Shoqz 0
1
vote
8
replies
3.0k
views
DESeq: Gene is not flagged as differentially expressed despite count data showing differences
DifferentialExpression DESeq2
8 months ago ktz • 0
0
votes
0
replies
353
views
News: Introduction to Epigenomics data analysis with R and Bioconductor course (online) - 14th-18th April
chipseq MNaseSeq ATACSeq
8 months ago info ▴ 10
1
vote
2
replies
1.1k
views
Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
annotation geneIDs flatheadmullet
updated 8 months ago by 68k • written 8 months ago by • 0
0
votes
1
reply
878
views
News: List of Deprecated Packages for Bioc3.20
Release Devel Bioconductor
14 months ago • updated 8 months ago shepherl 4.2k
0
votes
0
replies
18
views
Spam: Experience lasting confidence with Vidalista 40 mg
org.Sc.sgd.db
8 months ago irenejoshi07 0
1
vote
2
replies
1.4k
views
Help with the code for "BiocNeighbors::generic_find_knn() function used by scran::quickCluster()
BiocNeighbors generic_find_knn scran quickCluster
8 months ago Arctic • 0
0
votes
1
reply
775
views
DESeq2
org.Mmu.eg.db DESeq2 TimeCourse DMSOvsdrug RNASeqData
updated 8 months ago by ★ 5.0k • written 8 months ago by • 0
0
votes
1
reply
735
views
Mismatch between Illumina Mouse Methylation BeadChip annotation and genome browsers (UCSC/Ensembl)
methylationArrayAnalysis MethylationArrayData
updated 8 months ago by 68k • written 8 months ago by • 0
4
votes
6
replies
1.6k
views
Surprising behavior for DEXseq dispersion estimate plot?
DESeq2 DEXSeq
updated 8 months ago by ★ 5.0k • written 9 months ago by • 0
0
votes
4
replies
1.5k
views
Error in H5Dclose(h5dataset) when trying to read in kallisto h5 files
tximport rhdf5
8 months ago Sofia • 0
1
vote
1
reply
1.0k
views
ComBat with repeated measures
ComBat sva
updated 8 months ago by ★ 5.0k • written 8 months ago by • 0
0
votes
0
replies
463
views
News: List of Deprecated Packages for Bioc3.21
devel Release release Devel
8 months ago shepherl 4.2k
0
votes
0
replies
587
views
News: Bioconductor 3.21 Release Schedule Important Deadlines Approaching
Software Release release
8 months ago shepherl 4.2k
0
votes
0
replies
248
views
Correlation threshold
MethylationArray methylationArrayAnalysis StatisticalMethod
8 months ago user_bioinfo • 0
0
votes
0
replies
4
views
Spam: Does Spirit give free refunds?
ncdfFlow hcg110.db MethylSeekR
8 months ago Haggu 10
0
votes
0
replies
28
views
Spam: Can I change my BA flight to another date?
org.Sc.sgd.db MafDb.1Kgenomes.phase1.GRCh38 ncdfFlow
8 months ago Haggu 10
1
vote
0
replies
22
views
Spam: What is the cheapest day to fly on American Airlines? {Ask_Expert}
cadd.v1.6.hg38 MafDb.1Kgenomes.phase1.GRCh38 ncdfFlow
8 months ago Haggu 10
0
votes
0
replies
41
views
Spam: Can I cancel my British Airways flight and get a refund?
CAGEr gep2pep hcg110.db
8 months ago Haggu 10
0
votes
0
replies
8
views
Spam: vjkftykdtyk
proDA hcg110.db zlibbioc
8 months ago Haggu 10
2
votes
2
replies
1.5k
views
Improving performance of edgeR and limma while adjusting for multiple confounders
edgeR limma
updated 8 months ago by ★ 5.0k • written 8 months ago by • 0
0
votes
3
replies
1.0k
views
Merging EPICV1 and V2 betas
minfiDataEPIC minfi
updated 6 months ago by • 0 • written 8 months ago by • 0
0
votes
1
reply
637
views
Error in cnetplot
enrichplot clusterProfiler
updated 8 months ago by ★ 4.1k • written 9 months ago by • 0
0
votes
3
replies
862
views
getBM from biomaRt inconsistencies found with .gtf files across multiple species
.gtf biomaRt Ensembl
updated 8 months ago by ★ 6.6k • written 8 months ago by ▴ 20
2
votes
4
replies
1.0k
views
Explanation for ROAST results
CAMERA limma
written 8 months ago by • 0
1
vote
1
reply
441
views
Merging annotation with differential expression output
annotation RNASeqData
updated 8 months ago by 68k • written 8 months ago by • 0
0
votes
2
replies
650
views
Annotation package for Manduca sexta
annotation Manducasexta AnnotationData
8 months ago GA ▴ 10
0
votes
5
replies
908
views
Bioconductor unable to update 'curl'
curl HELP
8 months ago kagodwi2 • 0
0
votes
4
replies
2.4k
views
Ensembl site unresponsive via biomaRt
biomaRt
updated 8 months ago by • 0 • written 8 months ago by • 0
0
votes
1
reply
372
views
best way to grouping GSM belonging to different datasets (with different platforms) and compare differential gene expression
GEOquery
updated 8 months ago by 68k • written 9 months ago by • 0
1
vote
2
replies
1.4k
views
CpGs with genomic positions greater than the chromosome size in EPICv2?
EPICv2 EPICv2manifest
9 months ago • updated 8 months ago Joshua Llano • 0
1
vote
4
replies
775
views
DESEQ2 looking at main effects while controlling for a continuous variable
DESeq2
9 months ago • updated 8 months ago Lennie • 0
4
votes
5
replies
1.7k
views
Using TPM from tximport of Salmon output for singscore
singscore
9 months ago Kent • 0
5
votes
3
replies
1.2k
views
Using edgeR::voomLmFit for the analysis of paired clinical RNA-seq samples with multiple cell types
edgeR limma voomLmFit
updated 9 months ago by 53k • written 9 months ago by ▴ 10
2
votes
10
replies
4.6k
views
Problem at champ.load
ChAMPdata ChAMP
updated 9 months ago by • 0 • written 2.7 years 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
2
replies
437
views
myvariant error
myvariant getVariants
updated 9 months ago by • 0 • written 9 months ago by • 0
0
votes
4
replies
1.2k
views
Guidance Needed: Best Practices for Handling Technical Replicates in RNA-seq Analysis
DESeq2 TechnicalReplicates RNASeq
written 9 months ago by • 0
0
votes
0
replies
264
views
DiffBind multi-tissue comparison
DiffBind
9 months ago lryrainche • 0
1
vote
2
replies
684
views
affy::rma results doesn't match with ncbi website
affy Preprocessing Microarray
updated 9 months ago by 68k • written 9 months ago by • 0
0
votes
0
replies
483
views
fgsea: ranking genes using log2FC and pvalues derived from spline model
fgsea GeneSetEnrichment splines RNASeq
9 months ago GT • 0
1
vote
2
replies
1.2k
views
Use of org.Rn.eg.db with GRCr8 reference genome
DESeq2 org.Rn.eg.db
9 months ago • updated 6 months ago Erika • 0
0
votes
2
replies
861
views
Clarification on GOALL / GO2ALLORFs mapping
org.Sc.sgd.db
9 months ago DavideSant • 0
2
votes
2
replies
1.6k
views
Limma - Complex 2-way multi-level contrast with paired samples
edgeR contrastmatrix limma
9 months ago Elizabeth • 0
1
vote
8
replies
2.7k
views
[ChIP-seq] DESeq2 on counts matrix from union set of called peaks
csaw ChIPseq DESeq2 DiffBind
9 months ago • updated 8 months ago Luca • 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
1
vote
3
replies
1.2k
views
Loading Ensembl 98 EnsDb from Annotation Hub fails with database disk image malformed error
signac AnnotationHub
written 9 months ago by ▴ 110
46,697 results • Page 7 of 934
Recent ...
Replies
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 …
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.
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
WEHI, Melbourne, Australia, 38 minutes ago
The city by the bay, 45 minutes ago
United States, 52 minutes ago
United States, 59 minutes ago
United States, 1 hour ago
Traffic: 1284 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