0
votes
0
replies
356
views
Job: Lab Head positions at the WEHI, Melbourne, Australia
JobPosting Bioconductor
6 months ago Gordon Smyth 53k
1
vote
4
replies
2.3k
views
Heatmap of the Count Matrix
rnaseqGene
updated 3 months ago by • 0 • written 6 months ago by • 0
0
votes
1
reply
621
views
DESeq2 results
result DESeq2 subsetting
updated 6 months ago by ★ 5.0k • written 6 months ago by • 0
0
votes
0
replies
268
views
DiffBind plot.profile error
BiocParallel DiffBind
6 months ago this_is_me_trying • 0
0
votes
4
replies
9.0k
views
Bioconductor version cannot be validated
Bioconductor Annotation Ann
written 2.3 years ago by • 0
0
votes
4
replies
936
views
Position of the legend object in complexHeatmap
ComplexHeatmap
6 months ago caroline.zanchi ▴ 10
0
votes
4
replies
3.2k
views
Drawing custom KEGG pathways
pathview KEGG
written 4.6 years ago by ▴ 10
1
vote
18
replies
7.4k
views
error in ChAMP loading file
ChAMP
updated 5 months ago by • 0 • written 3.1 years ago by • 0
1
vote
4
replies
2.1k
views
How to left_join a tidySummarizedExperiment with a GRanges object by seqnames and start (tidyverse-style)?
GenomicRanges tidySummarizedExperiment tidyomics
8 months ago • updated 3 months ago Kateřina • 0
3
votes
2
replies
6.4k
views
limma duplicateCorrelation appropriate where some blocks cross condition and some are in same condition?
limma
6 months ago Geoff • 0
0
votes
1
reply
870
views
Workflow to Analyse DNA Sequence specify gene expression in a fungus under stress
rnaseqGene
updated 6 months ago by 43k • written 6 months ago by • 0
0
votes
1
reply
442
views
Unclear DEseq2 replaceOutliers error message
DESeq2
updated 6 months ago by 43k • written 6 months ago by • 0
0
votes
1
reply
475
views
lncRNA functional annotation package
RNAseq123
updated 6 months ago by 68k • written 6 months ago by • 0
1
vote
1
reply
689
views
Biomart server error
biomaRt BioMartGOGeneSets
updated 6 months ago by 68k • written 6 months ago by • 0
0
votes
0
replies
9
views
Spam: Best Piles Clinic in Hyderabad
cadd.v1.6.hg38 BestPilesClinicinHyderabad hcg110.db MethylSeekR
7 months ago Laserqure03 0
0
votes
2
replies
1.8k
views
An ESR essay about software design, and how it applies to Bioconductor
GUI GUI
written 21.8 years ago by ▴ 30
0
votes
1
reply
606
views
Difference in DESeq2 output and tidybulk DESeq2 method
DifferentialExpression DESeq2 tidybulk RNASeq
updated 7 months ago by 43k • written 7 months ago by • 0
3
votes
2
replies
2.1k
views
Deseq2 DE analysis of host-pathogen samples (model separately or jointly?)
DESeq2
7 months ago • updated 6 months ago dudutchy ▴ 10
0
votes
8
replies
1.6k
views
ERCC Spike-In controls being discarded during Tximeta process:
@mikelove tximeta
updated 6 months ago by 43k • written 7 months ago by • 0
2
votes
4
replies
2.7k
views
Altered (negative or positive) logFC values for same gene from two intitial count matrices, one being a subset of the other
Transcriptomics edgeR DEG
7 months ago Maziya • 0
4
votes
17
replies
5.9k
views
How to load scRNA-seq data from GEO
SingleCellExperiment GEO
updated 6 months ago by ★ 5.0k • written 7 months ago by ▴ 10
2
votes
3
replies
1.5k
views
Differential gene expression analysis on haplotype-resolved diploid assembly
edgeR DESeq2 haplotype limma
7 months ago Paulito • 0
0
votes
1
reply
652
views
Using EBI Image on Ranged Bar Chart
EBImage
written 7 months ago by • 0
1
vote
3
replies
1.2k
views
Possible issue following the logNormCounts(filtered) with resulted fit
single-cell SingleCell SingleCellExperiment SingleCellWorkflow SingleCellData
7 months ago Konstantinos Yeles ▴ 90
0
votes
2
replies
906
views
edgeR in DMR mode - replicates give batch effect - how to build design matrix with condition and replicate
edgeR
updated 7 months ago by ▴ 110 • written 7 months ago by • 0
0
votes
2
replies
595
views
GBCC2025: New Scholarship Opportunities Available!
Community Conference GBCC2025 Bioconductor
updated 4 months ago by • 0 • written 7 months ago by ▴ 110
0
votes
0
replies
308
views
Blank gene_id in featureCounts
featureCounts Rsubread
7 months ago Meg • 0
2
votes
5
replies
1.4k
views
Heatmap of rnaseq data with z-score scale
heatmaps RNASeq
updated 7 months ago by ▴ 110 • written 7 months ago by ▴ 10
0
votes
1
reply
565
views
FCS 32 support going backwards?
flowCore
updated 7 months ago by • 0 • written 7 months ago by • 0
0
votes
1
reply
495
views
Typo in the help of lmFit()
limma
updated 7 months ago by 53k • written 7 months ago by • 0
0
votes
2
replies
1.1k
views
Memory issue while using "quickcluster" and "computeSumFactors" functions on single cell RNA seq dataset with 7-9 lac cells
scran
updated 7 months ago by ★ 5.0k • written 7 months ago by • 0
4
votes
4
replies
2.1k
views
Adding gene names as row annotations to an RNAseq heatmap made with ComplexHeatmap
DESeq2 ComplexHeatmap
7 months ago caroline.zanchi ▴ 10
0
votes
2
replies
685
views
Limma suqeezeVar
limma
7 months ago Mengchun • 0
0
votes
0
replies
360
views
What Input-type do I use in decouplR::run_viper?
decoupleR viper
updated 7 months ago by 43k • written 7 months ago by • 0
0
votes
2
replies
1.3k
views
Limma trend with limpa
limpa limma trend
updated 6 months ago by 53k • written 7 months ago by • 0
0
votes
1
reply
441
views
DESeq2 from phyloseq error
DESeq2 phyloseq
7 months ago asafpr • 0
0
votes
0
replies
336
views
Combining COMBAT-seq result (raw count) with other raw count
rnaseq combat-seq sva combat bulk-rnaseq
7 months ago dudwnsrla1 • 0
0
votes
1
reply
546
views
Can't install BioC packages (and manager) behind firewall
Install
updated 7 months ago by 700 • written 7 months ago by • 0
1
vote
2
replies
1.5k
views
GSVA 1.52.2 (new API) nb of workers?
parallelize workers GSVA
written 18 months ago by • 0
0
votes
2
replies
560
views
How to extract coordinates of mismatches from a BAM file lodaded in as a GAlignments?
GenomicAlignments
updated 7 months ago by 16k • written 7 months ago by • 0
4
votes
2
replies
1.4k
views
GAlignments Cigar to GRanges
GenomicRanges cigarRangesAlongReferenceSpace GenomicAlignments Cigar
7 months ago pineiroalejandro ▴ 10
3
votes
3
replies
658
views
AnnotationHub/ExperimentHub resources backup
AnnotationHub HubPub ExperimentHub
updated 7 months ago by 68k • written 7 months ago by ▴ 50
6
votes
8
replies
5.7k
views
WGCNA coupled with differential expression analysis: question about baseline module detection
wgcna WGCNA
written 5.7 years ago by ▴ 60
0
votes
3
replies
5.3k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
updated 3 days ago by • 0 • written 2.7 years ago by • 0
3
votes
1
reply
666
views
DESeq2 Apeglm Coefficient Reordering / Log2FoldChange Comparison Change
DESeq2 apeglm
updated 7 months ago by 68k • written 7 months ago by • 0
0
votes
0
replies
1.1k
views
Diffbind Analysis gives error during profile plotting stage. Error in value[[3L]](cond) : profileplyr error: Error: BiocParallel errors 1 remote…
chipseq profileplyr DiffBind
7 months ago Muhammad • 0
0
votes
0
replies
11
views
Spam: County Group Wave City Ghaziabad
ri16cod.db ncdfFlow
7 months ago countywavecityghaziabad 0
1
vote
5
replies
1.5k
views
Heatmap of a transformed deseq object with pheatmap
DESeq2 heatmaps
updated 7 months ago by 68k • written 7 months ago by ▴ 10
0
votes
1
reply
414
views
Error in readCodelinkSet function
error codelink
updated 7 months ago by 68k • written 7 months ago by • 0
0
votes
1
reply
720
views
Combat-seq usage
sva
7 months ago • updated 6 months ago bbao ▴ 10
46,700 results • Page 5 of 934
Recent ...
Replies
Comment: nice 3D displays for PCA analysis by adam80haynes • 0
That's a fascinating application of 3D printing in a scientific context. Using this technology to create custom lab equipment, models of mo…
Comment: Bioinformatician at the Lausanne University Hospital by TikTsokaasocissalpc • 0
The Random Word Generator in Italian is a useful tool for generating ideas and exploring new approaches, much like the innovative research …
Comment: DECIPHER DesignProbes unable to design FISH-probes by TikTsokaasocissalpc • 0
If you want to share your research progress and microbiome discoveries with colleagues or friends, [snaptroid android][1] download free mak…
Answer: Limma-voom sample weights and impact on DEG numbers by Gordon Smyth 53k
I recommend that you always use voomLmFit() instead of the earlier voom() or voomWithQualityWeights() functions. Personally, I would use sa…
Answer: wgcna module preseravtion taking too long? by ATpoint ★ 5.0k
WGCNA is not a Bioconductor package, you won't get an answer here. Consider biostars.org or the r/bioinformatics reddit. Note that 10 sampl…
Votes
Limma-voom sample weights and impact on DEG numbers
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
Awards • All
Popular Question to Gordon Smyth 53k
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to Istvan Albert ▴ 50
Popular Question to Dario Strbenac ★ 1.6k
Scholar to Nikos Ignatiadis ▴ 180
Locations • All
France, 26 minutes ago
Finland, 1 hour ago
The city by the bay, 1 hour ago
United States, 2 hours ago
United States, 2 hours ago
Traffic: 876 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