0
votes
1
reply
875
views
DESeq2 for pseudobulk analysis of scCITE-seq
DESeq2 scCITE-seq
updated 22 months ago by ★ 5.0k • written 22 months ago by • 0
1
vote
2
replies
792
views
supportedOrganisms() in goseq producing Error in names(trackIds)
goseq Bioconductor rtracklayer
22 months ago thomas • 0
1
vote
1
reply
632
views
Error with BSgenome, wanting to analyse non-model species with ATACseqQC
ATACseqQC
updated 22 months ago by 68k • written 22 months ago by • 0
0
votes
8
replies
1.6k
views
DESeq and SVA for batch effect
DESeq2 BatchEffect sva
22 months ago michelafrancesconi8 • 0
0
votes
1
reply
689
views
Unusually large fold-changes in Deseq2 results
DESeq2
updated 22 months ago by ★ 5.0k • written 22 months ago by • 0
0
votes
1
reply
737
views
News: Join BOC Sciences at Drug Discovery Chemistry 2024
DFP
written 22 months ago by • 0
2
votes
6
replies
1.6k
views
limma: vooma mean-variance trend and data filtration
MicroarrayData limma
22 months ago • updated 21 months ago Lily Cheang ▴ 10
3
votes
8
replies
1.4k
views
Constrast for Time Course Experiments using Limma
limma
22 months ago dl17032000 • 0
1
vote
4
replies
937
views
DESeq2 Replicates
DESeq2 RNASeq
22 months ago kcarey • 0
2
votes
6
replies
1.1k
views
Factor vs Character in design
DESeq2
22 months ago James Aiden • 0
1
vote
3
replies
1.1k
views
Dispersion estimation step is very slow with latest DESeq2 and glmGamPoi
DESeq2 glmGamPoi
22 months ago I-Hsuan Lin ▴ 10
4
votes
7
replies
1.9k
views
weird volcano plot
DESeq2
updated 22 months ago by • 0 • written 2.1 years ago by ▴ 10
0
votes
1
reply
756
views
DEseq2 dispersion plot
DESeq2
updated 22 months ago by 43k • written 22 months ago by • 0
1
vote
0
replies
710
views
News: Nominations for Bioconductor Awards 2024!
Recognition Awards Bioconductor Bioc2024
22 months ago shepherl 4.2k
0
votes
2
replies
1.1k
views
News: BioC2024 abstract submission is open!
BioC2024 Conference Bioconductor
written 22 months ago by ▴ 110
0
votes
0
replies
631
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
22 months ago • updated 21 months ago Giovanni Calice ▴ 160
0
votes
0
replies
1.1k
views
Job: Bioinformatics Spatial Omics and Proteomics Postdoc (Research Officer / Senior Research Officer) at WEHI (Melbourne, Australia)
Proteomics JobPosting SingleCell Spatial SpatialExperiment
22 months ago Peter Hickey ▴ 760
1
vote
3
replies
2.2k
views
Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation GO MethylationArray missMethyl EPICv2
22 months ago • updated 15 months ago s.malik • 0
0
votes
0
replies
1.1k
views
Error: grouping factors must have > 1 sampled level
Mast mastR MAST
updated 22 months ago by 68k • written 22 months ago by • 0
0
votes
0
replies
698
views
News: Online course: Mass Spectrometry and Proteomics with R/Bioconductor
MSnbase
22 months ago info ▴ 10
1
vote
1
reply
1.2k
views
featureCounts unable to assign long reads to one specific isoform
featureCounts Rsubread
updated 22 months ago by ★ 3.6k • written 23 months ago by • 0
0
votes
1
reply
576
views
Different results from DGE using different subgroups in model.matrix
edgeR
updated 22 months ago by 53k • written 22 months ago by • 0
1
vote
3
replies
1.1k
views
DESEQ2 Batch Effect
DESeq2 BatchEffect RNASeq
updated 22 months ago by ★ 1.4k • written 22 months ago by ▴ 10
0
votes
11
replies
1.9k
views
Strange logFC values in differential methylation site anslysis
edgeR MethylationArray
updated 22 months ago by 53k • written 22 months ago by • 0
0
votes
2
replies
1.1k
views
Is DESeq2 normalisation appropriate when counts were obtained for a small number of genes?
DESeq2
updated 22 months ago by ★ 5.0k • written 22 months ago by • 0
8
votes
6
replies
1.3k
views
DGE analysis with LIMMA
limma
updated 22 months ago by 53k • written 22 months ago by • 0
0
votes
0
replies
801
views
News: BioC2024 registration is now open!
BioC2024 Conference Bioconductor Community
22 months ago Maria Doyle ▴ 110
0
votes
1
reply
911
views
error in Matrix function
MatrixQCvis
updated 22 months ago by 68k • written 22 months ago by • 0
0
votes
3
replies
972
views
Would I treat surrogate variables as batches?
DESeq2 sva
updated 22 months ago by 68k • written 22 months ago by ▴ 10
1
vote
0
replies
780
views
Could SGSeq utilizes "ts" tag produced from minimap2 other than "XS" tag?
XS-tag SplicedAlignment SGSeq minimap2
22 months ago jk ▴ 10
0
votes
0
replies
600
views
Can I combine collinear variables into a single value
BatchEffect limma
22 months ago Harrsha • 0
0
votes
1
reply
717
views
Changed DESeq2 comparison value but the heatmap is still the same
DESeq2 pheatmap
updated 22 months ago by 68k • written 22 months ago by • 0
6
votes
5
replies
2.3k
views
Estimating Cell Counts for EPIC V2 array data
FlowSorted.Blood.EPIC minifi
written 22 months ago by • 0
1
vote
4
replies
1.0k
views
Further clarification of unbalanced group sizes DESeq2
DESeq2
22 months ago hmillike • 0
0
votes
0
replies
1.1k
views
Error in set(x, j = name, value = value) : Supplied 52 items to be assigned to 55 items of column 'locus'. If you wish to 'recycle' the RHS please…
ASpli
22 months ago vipul14 • 0
0
votes
0
replies
646
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
22 months ago danalvoronov ▴ 10
2
votes
1
reply
1.2k
views
clusterProfiler, AnnotationHub, and discrepancies in GO Terms
Atlanticsalmon clusterPro Salmosalar AnnotationHub GeneOntology
updated 22 months ago by 43k • written 22 months ago by • 0
0
votes
1
reply
726
views
ExactTest vs QLFTest
edgeR
updated 22 months ago by 53k • written 22 months ago by • 0
0
votes
2
replies
787
views
arm64 Update to flowWorkspace (4.14.2)
flowWorkspace
22 months ago rgong1 • 0
0
votes
0
replies
523
views
lfcSE
RGSEA
22 months ago Gordon • 0
0
votes
1
reply
695
views
Matrix multiplication error to estimate telomere length
methylclockData minfi methylclock minfidata
updated 22 months ago by 68k • written 22 months ago by • 0
0
votes
3
replies
933
views
impute.knn produces different results based on matrix order
impute
updated 22 months ago by 68k • written 22 months ago by • 0
0
votes
1
reply
489
views
few significant genes from DESeq2 analysis
DESeq2
updated 22 months ago by 43k • written 22 months ago by • 0
0
votes
3
replies
1.2k
views
Differential enrichment analysis
limma Differentialenrichmentanalysis DEP
updated 22 months ago by 53k • written 22 months ago by • 0
1
vote
2
replies
1.8k
views
Impute does not work
impute
22 months ago Laura • 0
2
votes
3
replies
1.1k
views
"could not find function "readTSGE" in package ctsGE" Error occurs when trying to follow ctsGE package instructions.
GeneExpression Clustering ctsGE
22 months ago jbgnielson • 0
0
votes
4
replies
1.1k
views
Interactions in batches of varying size with different number of replicates using limma
limma RNASeq DifferentialExpression
22 months ago mperalc • 0
0
votes
2
replies
1.2k
views
Error in featureCounts matrix
GenomeWideAssociation countsimQC RNASeq
updated 22 months ago by 53k • written 22 months ago by • 0
1
vote
7
replies
1.8k
views
Library size normalization in methylation count analysis
edgeR MethylationArray
updated 14 months ago by • 0 • written 22 months ago by • 0
0
votes
0
replies
637
views
Unclear exon-exon connection after RSubjunc() usage
IGV Rsubjunc Rsubread
22 months ago thomas.heigl.ibk • 0
46,702 results • Page 30 of 935
Recent ...
Replies
Comment: Empty boxes in treemap plot rrvgo package by TikTsokaasocissalpc • 0
Clear visualization matters just as much in mobile entertainment as in data analysis. The [Try KK33 Game App now][1] focuses on clean layou…
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…
Votes
Error in SummarizedExperiment(assays = SimpleList(counts = countData)
Answer: DESeq2 class error: superclass "ExpData" not defined in the environment of the o
Limma-voom sample weights and impact on DEG numbers
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Awards • All
Popular Question to Gordon Smyth 53k
Popular Question to Hervé Pagès 16k
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to Istvan Albert ▴ 50
Popular Question to Dario Strbenac ★ 1.6k
Locations • All
Chippenham, UK, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
The city by the bay, 2 hours ago
United States, 2 hours ago
Surrey, UK, 3 hours ago
Traffic: 945 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