2
votes
10
replies
2.5k
views
Accounting for Batch effect reduces DEGs drastically
DESeq2
2.2 years ago rohitsatyam102 ▴ 20
2
votes
9
replies
3.7k
views
object HPOGENE is not exported by namespace HPO.db
clusterProfiler HPO.db
updated 2.2 years ago by ▴ 50 • written 2.2 years ago by ▴ 30
4
votes
10
replies
3.0k
views
Archives prior to 3.15 gone
archive bioconductor
updated 2.2 years ago by 4.2k • written 3.3 years ago by ▴ 30
0
votes
3
replies
1.2k
views
determine if R package or it's dependencies functionality require internet access
biomaRt
updated 2.2 years ago by 53k • written 2.2 years ago by • 0
0
votes
2
replies
1.0k
views
can't update bioconductor 3.18
BioCor bioc BiocVersion
2.2 years ago feifan • 0
3
votes
4
replies
3.0k
views
Annotation hub and clusterProfiler errors
clusterProfiler Annotationhub
updated 2.2 years ago by ★ 4.1k • written 2.2 years ago by • 0
1
vote
5
replies
1.8k
views
ChIPpeakAnno annotatePeakInBatch output
ChIPpeakAnno
2.2 years ago ilaria.maurizio • 0
0
votes
6
replies
2.4k
views
DESeq2 Normalization with 4 Groups
Normalization RNASeq DESeq2
2.2 years ago erika.maldonado-rosado • 0
1
vote
2
replies
1.3k
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
written 2.2 years ago by ▴ 10
0
votes
2
replies
1.0k
views
How can I devise a method like DESeq2 to give statistics for paired multiple -omic datasets?
DESeq2
updated 2.2 years ago by • 0 • written 2.2 years ago by • 0
0
votes
0
replies
675
views
proActiv - Error in estimateSizeFactorsForMatrix when using the proActiv function
proActiv error estimateSizeFactorsForMatrix
2.2 years ago Chris • 0
0
votes
5
replies
1.3k
views
error while running DMRcate
stattistics epicarray Epigenetics DMRcate
updated 2.2 years ago by 68k • written 2.2 years ago by ▴ 10
0
votes
4
replies
1.4k
views
How to correct for known and surrogate variables in DESeq2?
DESeq2 BatchEffect sva limma
updated 20 months ago by 43k • written 2.2 years ago by • 0
0
votes
1
reply
1.2k
views
DMR.plot() Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie
DMRcate DMR.plot
updated 2.2 years ago by 4.2k • written 2.2 years ago by • 0
0
votes
1
reply
1.6k
views
Problems when running GDC_prepare in R
TCGAbiolinks error GDC_prepare
2.2 years ago leon • 0
0
votes
5
replies
1.4k
views
Limma continuous design (association polygenic risk score with gene expression)
limma
updated 2.1 years ago by 53k • written 2.2 years ago by • 0
0
votes
1
reply
646
views
MEDIPS - covariate
MEDIPS
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
0
votes
1
reply
1.4k
views
Job: Job:Data Scientist / Bioinformatician / Statistician at University of California San Francisco (UCSF)
programming datascientist psychiatry bioinformatics JobPosting
2.2 years ago Belinda • 0
2
votes
3
replies
2.7k
views
Two factor design including interaction effect with DESeq2 in R
DESeq2 RNASeqData deseq2 ExperimentalDesign
updated 2.2 years ago by ★ 1.4k • written 2.2 years ago by • 0
2
votes
4
replies
1.5k
views
Need help generating BSgenome and orgdb
OrgDb BSgenome
2.2 years ago • updated 23 months ago mat149 ▴ 80
1
vote
1
reply
1.3k
views
rtracklayer error for browserSession UCSC
rtracklayer
updated 2.2 years ago by 16k • written 2.2 years ago by ▴ 10
1
vote
3
replies
1.4k
views
Using injectSNPs with a custom set of SNPs
SNPlocs BSgenome
written 2.2 years ago by • 0
6
votes
7
replies
1.8k
views
[Bug] Segfault in edgeR::cpm
edgeR segfault
updated 2.2 years ago by ★ 5.0k • written 2.2 years ago by ▴ 20
0
votes
0
replies
764
views
is Dada2 biased toward a particular sequence ?
virology dada2 amplican Sequencing RNASeq
2.2 years ago Sara • 0
0
votes
2
replies
780
views
DESeq2: how could the lower mean abundance treatment show a positive and significant LFC?
DESeq2
2.2 years ago Roey Angel • 0
0
votes
4
replies
1.7k
views
Retrieve gene ontologies (GO) for genes and a species by REST API
GO ensembldb
2.2 years ago Rockbar • 0
2
votes
4
replies
1.5k
views
Question about creating custom organism database with AnnotationForge
AnnotationForge
2.2 years ago Adrian • 0
0
votes
0
replies
861
views
News: COURSE - Developing R/Bioconductor Packages for Genomics
Bioconductor PackageTypeData PackageType
2.2 years ago info ▴ 10
0
votes
2
replies
1.1k
views
Will DESeq2 be appropriate tool for analysis?
RNASeq DESeq2
2.2 years ago Karthik • 0
0
votes
1
reply
1.9k
views
DESeq2 Error in Results Contrast and ResultsNames
DESeq2
updated 2.2 years ago by 43k • written 2.2 years ago by • 0
0
votes
2
replies
1.3k
views
recount3 monorail pipeline version
recount3
2.2 years ago • updated 2.0 years ago Lorenzo • 0
2
votes
0
replies
587
views
bioNeuro plot_expression_profile - how to order samples in plot output
plot_expression_profile BioNERO
2.2 years ago Christopher ▴ 20
0
votes
0
replies
755
views
Dual species RNA-seq, Library size and normalization
Normalization edgeR RNASeq DESeq2
2.2 years ago Florian • 0
0
votes
1
reply
2.3k
views
choosing rank for GSEA
gsea DESeq2
updated 2.2 years ago by ★ 5.0k • written 2.2 years ago by • 0
0
votes
0
replies
1.0k
views
Pysam pileup and Rsamtools pileup output discrepancy
Pysam pileup Rsamtools RNASeq
2.2 years ago Xinqi • 0
1
vote
2
replies
1.5k
views
AnnotationHub data for Mus musculus seems to be missing, while previously it was there
tximeta AnnotationHub AnnotationHubData
2.2 years ago Thon • 0
0
votes
0
replies
929
views
Using DADA2 for finding viral sequence variants
VariantDetection dada2 RNASeq
2.2 years ago Sara • 0
1
vote
5
replies
1.2k
views
Duplicated expression values?
depmap_copyNumber() depmap
written 2.2 years ago by • 0
2
votes
2
replies
927
views
"Details" section for specific software packages
Website
updated 2.2 years ago by ★ 6.6k • written 2.2 years ago by • 0
0
votes
1
reply
2.7k
views
edgeR heatmap construction and interpretation
heatmaps
updated 2.2 years ago by 53k • written 2.2 years ago by • 0
1
vote
2
replies
885
views
Error creating SPIA data for KEGG Orthology (KO) Database KEGG xml files
SPIA
2.2 years ago Benji Bromberg ▴ 30
1
vote
1
reply
1.1k
views
Multiple comparison using DESeq2
RNASeqData RNASeq DESeq2
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
0
votes
3
replies
1.3k
views
Tximport Error - transcripts in quant files are not the same as tx2gene
salmon tximport deseq2
updated 2.2 years ago by 43k • written 2.2 years ago by • 0
3
votes
6
replies
2.6k
views
Subsetting Range Summarized Experiment
SummarizedExperiment
2.2 years ago Bine ▴ 50
0
votes
0
replies
732
views
How many ancestries to send in admixMap() when doing a two-way analysis?
GENESIS admixMap
2.2 years ago mailtoshivam13 • 0
0
votes
2
replies
1.9k
views
Using dplyr commands with DataFrame objects
S4Vectors
2.2 years ago GE • 0
0
votes
4
replies
2.1k
views
News: Important Bioconductor Release 3.18 deadlines this week
Release Devel release devel
updated 2.2 years ago by ★ 4.1k • written 2.2 years ago by 4.2k
0
votes
2
replies
1.5k
views
enrichPlot error when plotting topGO results
topGO enrichplot
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
0
votes
1
reply
1.2k
views
GenomeInfoDbData version 1.2.9
GenomeInfoDbData
updated 2.2 years ago by 4.2k • written 2.2 years ago by • 0
0
votes
5
replies
1.8k
views
minfi, limma, adjusting for cell counts - integrating the resoults of estimateCellCounts into the linear regression model
minfi limma
2.2 years ago dorota.komar • 0
46,702 results • Page 40 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
United States, 3 minutes ago
United States, 14 minutes ago
The city by the bay, 52 minutes ago
United States, 1 hour ago
Barcelona, Spain, 3 hours ago
Traffic: 1330 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