0
votes
1
reply
32
views
recount3 problem downloading data from source sra
recount3
updated 2 hours ago by ★ 1.0k • written 5 hours ago by • 0
0
votes
1
reply
39
views
Running ENmix with mouse methylation manifest: readidat error - Error in readmanifest(manifestfile) : length(control.line) == 1 && is.integer(cont…
ENmix Bioconductor
3 hours ago minardsmitha ▴ 10
0
votes
1
reply
44
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 5 hours ago by 66k • written 21 hours ago by • 0
0
votes
0
replies
18
views
Conditional analysis
GENESIS
6 hours ago SuperDad • 0
0
votes
1
reply
39
views
Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools limma ExpressionData RNASeq edgeR
updated 7 hours ago by 66k • written 8 hours ago by ▴ 10
0
votes
0
replies
18
views
FindOverlaps, makeVennDiagram and "others"
ATACSeq peaks ATAC ChIPpeakAnno
7 hours ago • updated 4 hours ago Raghad • 0
0
votes
2
replies
67
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db biomaRt
written 1 day ago by ▴ 40
0
votes
2
replies
70
views
How to run allelic imbalance in apeglm
apeglm
updated 1 day ago by 42k • written 2 days ago by ▴ 20
0
votes
1
reply
68
views
ERROR; return code from pthread_create() is 22
affy
updated 1 day ago by 66k • written 3 days ago by • 0
1
vote
3
replies
112
views
LRT, more than two conditions and pairwise comparisons
DESeq2
updated 1 day ago by 66k • written 2 days ago by ▴ 720
1
vote
1
reply
167
views
How to remove batch effect to combine RNAseq data from 2 different experiments?
BatchQC BatchEffect RNASeq
updated 1 day ago by 66k • written 1 day ago by • 0
1
vote
1
reply
65
views
Control group between 2 batches have different expression in RNAseq data
BatchQC BatchEffect rnaseqGene Normalization
updated 1 day ago by 66k • written 1 day ago by • 0
0
votes
0
replies
19
views
Job: Post-Doc: Development of a new method to study the distribution of the effect sizes of QTL
StatisticalMethod Evolution QuantitativeTrailLocus Genetics JobPosting
1 day ago pierre.devillemereuil • 0
1
vote
2
replies
102
views
Subsetting RNAseq data | voomaByGroup()
limma
3 days ago • updated 1 day ago Anna • 0
0
votes
1
reply
44
views
ENCORI or starBase : ceRNA data retrieval using Web API and curl
curl microRNA starBase webapi ENCORI
updated 1 day ago by ★ 4.1k • written 1 day ago by • 0
0
votes
0
replies
12
views
Spam: Understanding Laser Hair Removal?
healthyControlsPresenceChecker
1 day ago shahrozimmac 0
0
votes
0
replies
29
views
Processing of curatedmetagenomics
curatedMetagenomicData
1 day ago Edward • 0
7
votes
6
replies
646
views
Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it does not happen in Linux
GenomAutomorphism
written 16 days ago by • 0
0
votes
5
replies
158
views
all variables in design formula must be columns in colData (Deseq2) error
BatchQC batchinDeseq2. columnsincolData.
2 days ago • updated 1 day ago Galina • 0
0
votes
0
replies
36
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
RNASeq scRNAseq
2 days ago Bibi • 0
0
votes
6
replies
563
views
Numerical differences in DESeq2 output depending on different design matrix construction
DESeq2
4 days ago • updated 1 day ago Ken C • 0
2
votes
4
replies
192
views
DESeq2- Mysterious interaction suppresses DEGs
DESeq2 PCAplot RNA-Seq DesignModel
updated 1 day ago by 42k • written 4 days ago by • 0
0
votes
0
replies
49
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets allele_freq biomaRt getBM
3 days ago • updated 2 days ago Abiologist • 0
0
votes
3
replies
122
views
STRINGdb : error with string_db$plot_network()
STRINGdb
updated 4 days ago by ▴ 80 • written 4 days ago by • 0
0
votes
2
replies
132
views
DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set
DECIPHER
5 days ago makala • 0
2
votes
2
replies
414
views
Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(paste("networks", net.suid, "tables", tbl, sep = "/"), : object 're…
RCy3
9 days ago • updated 5 days ago Matthew Thornton ▴ 360
0
votes
0
replies
62
views
determine k during RUVSeq
RUVSeq RUVnormalize
5 days ago Ειρήνη • 0
2
votes
3
replies
153
views
Problem installing ChAMP on a MacBook
ChAMP
updated 5 days ago by 3.9k • written 5 days ago by • 0
0
votes
0
replies
63
views
ReactomeGSA for RNASeq
ReactomeGSA BatchEffect RNASeqData
5 days ago Shaimaa Gamal • 0
0
votes
0
replies
15
views
Spam: Unveiling Unmatched Best Custom Patches
SIMAT
5 days ago oliverelijhan 0
0
votes
0
replies
93
views
ChIPseeker peak_Profile_Heatmap color palette
ChIPseeker
5 days ago Anton01 • 0
0
votes
0
replies
57
views
GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO KEGG gage pathview
5 days ago danalvoronov ▴ 10
0
votes
0
replies
58
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq WGCNA
5 days ago k200987 • 0
2
votes
5
replies
242
views
Error while installing BiocManager::install("org.Vdahliae.eg.db")
org.vdahlaie.eg.db Bioconductor
6 days ago • updated 4 days ago Patadù ▴ 10
0
votes
4
replies
157
views
error running enricher from clusterprofiler
clusterProfiler cluster
6 days ago Yael • 0
2
votes
3
replies
155
views
How to correctly adjust for gender in edgeR
design glm edgeR
updated 5 days ago by 50k • written 6 days ago by • 0
2
votes
1
reply
92
views
How to design DEXSeq formula for multiple variables
DEXSeq
updated 6 days ago by ★ 1.9k • written 8 days ago by • 0
4
votes
9
replies
293
views
Can DESeq2 rlog normalized matrix reflects time course result directly?
DESeq2 timecoursedata GeneExpression
updated 5 days ago by ★ 4.1k • written 6 days ago by • 0
0
votes
0
replies
49
views
Difference in Contrast in DiffBind
DiffBind
6 days ago zzrammal • 0
1
vote
2
replies
122
views
Erroe when using makeOrgPackageFromNCBI()
AnnotationForge
6 days ago Patadù ▴ 10
10
votes
10
replies
1.9k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq rnaseq
updated 5 days ago by ▴ 220 • written 6.7 years ago by ▴ 80
0
votes
3
replies
141
views
Assymetric MA plot with no overall trend
DESeq2 DifferentialExpression
updated 6 days ago by 42k • written 7 days ago by • 0
1
vote
2
replies
147
views
Can log2cpm be used for proteomics data normalization?
metaMSdata
7 days ago • updated 6 days ago Daniel • 0
0
votes
8
replies
537
views
Can I trust the differential expression analysis when the two groups overlap on the PCA?
DESeq2 pcaExplorer
updated 6 days ago by ▴ 30 • written 8 days ago by • 0
1
vote
3
replies
265
views
How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups
DifferentialExpression TimeCourse timeOmics edgeR RNAseq
updated 6 days ago by 50k • written 7 days ago by • 0
1
vote
2
replies
262
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2 eigencorplot PCAtools
7 days ago • updated 5 days ago BioinfGuru ▴ 30
0
votes
5
replies
258
views
ChAMP installation issue
Cha ChAMP
updated 5 hours ago by 3.9k • written 8 days ago by • 0
4
votes
5
replies
344
views
Method to find pathways different between 2 groups
fgsea GSVA CAMERA
15 days ago • updated 6 days ago Chris ▴ 10
1
vote
2
replies
209
views
Citation for edgeR user guide
edgeR
written 28 days ago by ▴ 30
0
votes
4
replies
1.2k
views
News: European Bioconductor Conference 2023 planning
Europe Conference EuroBioC Events News
updated 4 days ago by • 0 • written 19 months ago by ▴ 70
59 results • Page 1 of 2
Recent ...
Replies
Answer: recount3 problem downloading data from source sra by Leonardo Collado Torres ★ 1.0k
Hi, I wasn't able to reproduce the issue on both bioc 3.19 (current release version) and 3.18 (closer to your session info). My guess is…
Answer: Running ENmix with mouse methylation manifest: readidat error - Error in readman by minardsmitha ▴ 10
Well it turns out there is a typo in the manifest file name. This particular issue is resolved by correcting the typo. A new error now …
Answer: Documenting resources in an `ExperimentHub` package? by James W. MacDonald 66k
The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, bu…
Comment: ChAMP installation issue by shepherl 3.9k
We are still waiting for the goseq to respond to our requests but will take action next week if it is not resolved. ChAMP is currently una…
Comment: How to arrange multiple plots into one page in NOISeq? by baptiste.bidon • 0
After facing the same problem, I realise that you can direct your plot in the matrix with the *par()* option `par(..., mfg = c(1,2))`. If i…
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
Awards • All
Scholar to Mike Smith ★ 6.5k
Popular Question to mohammedtoufiq91 ▴ 10
Popular Question to Gordon Smyth 50k
Popular Question to bas_work ▴ 30
Popular Question to landenshanie ▴ 40
Locations • All
United States, 2 minutes ago
United States, 10 minutes ago
United States, 24 minutes ago
United States, 33 minutes ago
United States, 37 minutes ago
Traffic: 811 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