0
votes
2
replies
57
views
Volcano plot of scRNA-seq data not "centered"
DESeq2
updated 9 hours ago by 42k • written 10 hours ago by • 0
0
votes
0
replies
12
views
Error when running topGO with KS statistic and elim agorithm
topGO
11 hours ago adendekk • 0
0
votes
0
replies
18
views
News: Bioconductor Build System
Builds Bioconductor
14 hours ago shepherl 3.9k
8
votes
6
replies
4.2k
views
Using the plotting functions of clusterProfiler / enrichplot with enrichment results from other programs
clusterProfiler enrichplot
updated 15 hours ago by ▴ 30 • written 5.0 years ago by ▴ 160
0
votes
0
replies
25
views
News: BioC2024 Bioconductor Carpentries RNA-Seq Workshop July 22-23
BioC2024 Conference Bioconductor Community
16 hours ago Maria Doyle ▴ 70
0
votes
4
replies
172
views
Using featureCounts with SAF annotation file gives "Error: only GTF files contain additional attributes"
RNASeq Rsubread
updated 1 hour ago by ★ 3.6k • written 18 hours ago by • 0
5
votes
6
replies
240
views
Not able to install any Bioconductor 3.18 package [unable to access index]
Install
updated 18 hours ago by ▴ 120 • written 1 day ago by ▴ 140
2
votes
2
replies
83
views
unable to access bioconductor packages - qvalue installation failed...
Install
updated 21 hours ago by 3.9k • written 1 day ago by ▴ 10
2
votes
2
replies
66
views
Get gene symbols for a set of hg19 coordinates
annotation hg19
1 day ago • updated 22 hours ago pcantalupo ▴ 10
0
votes
0
replies
16
views
Job: Bioinformatics MSc University of York
bioinformatics JobPosting
1 day ago Daphne • 0
2
votes
4
replies
139
views
Help with infinite recursion - non-zero exit status in installation of GenomeInfoDbData
Install GenomeInfoDbData GenomeInfoDb
updated 19 hours ago by 66k • written 1 day ago by ▴ 20
1
vote
3
replies
2.8k
views
WGNCA kME vs. kIM
WGCNA
updated 1 day ago by • 0 • written 8.7 years ago by ▴ 30
0
votes
3
replies
103
views
pathview error
KEGGgraph KEGG
updated 1 day ago by ★ 4.0k • written 2 days ago by • 0
1
vote
8
replies
143
views
Slightly different count plots from R and spreadsheet
DESeq2 ggplot2
1 day ago boczniak767 ▴ 720
0
votes
0
replies
26
views
Problem in execuation of filterAndTrim command in DADA2
Bioconductor dada2
1 day ago abhisek001 • 0
2
votes
2
replies
116
views
Identifying DEGs using limma - NanoString GeoMx-NGS RNA Expression Data
NanoStringNCTools limma ExpressionData RNASeq edgeR
2 days ago mohammedtoufiq91 ▴ 10
4
votes
3
replies
146
views
recount3 problem downloading data from source sra
recount3
updated 1 day ago by ★ 1.1k • written 2 days ago by ▴ 10
0
votes
5
replies
243
views
Running ENmix with mouse methylation manifest: readidat error - Error in readmanifest(manifestfile) : length(control.line) == 1 && is.integer(cont…
ENmix Bioconductor
updated 17 hours ago by • 0 • written 2 days ago by ▴ 10
1
vote
1
reply
81
views
Documenting resources in an `ExperimentHub` package?
AnnotationHub ExperimentHub
updated 2 days ago by 66k • written 3 days ago by • 0
0
votes
0
replies
36
views
Conditional analysis
GENESIS
2 days ago SuperDad • 0
0
votes
0
replies
35
views
FindOverlaps, makeVennDiagram and "others"
ATACSeq peaks ATAC ChIPpeakAnno
2 days ago Raghad • 0
0
votes
2
replies
106
views
Errors in chromosome annotation-biomaRt
org.Rn.eg.db biomaRt
3 days ago • updated 18 hours ago landenshanie ▴ 40
0
votes
2
replies
88
views
How to run allelic imbalance in apeglm
apeglm
updated 3 days ago by 42k • written 4 days ago by ▴ 20
0
votes
1
reply
83
views
ERROR; return code from pthread_create() is 22
affy
updated 3 days ago by 66k • written 5 days ago by • 0
1
vote
3
replies
144
views
LRT, more than two conditions and pairwise comparisons
DESeq2
updated 3 days ago by 66k • written 4 days ago by ▴ 720
1
vote
1
reply
185
views
How to remove batch effect to combine RNAseq data from 2 different experiments?
BatchQC BatchEffect RNASeq
updated 3 days ago by 66k • written 4 days ago by • 0
1
vote
1
reply
84
views
Control group between 2 batches have different expression in RNAseq data
BatchQC BatchEffect rnaseqGene Normalization
updated 3 days ago by 66k • written 4 days ago by • 0
0
votes
0
replies
29
views
Job: Post-Doc: Development of a new method to study the distribution of the effect sizes of QTL
StatisticalMethod Evolution QuantitativeTrailLocus Genetics JobPosting
3 days ago pierre.devillemereuil • 0
1
vote
2
replies
125
views
Subsetting RNAseq data | voomaByGroup()
limma
5 days ago • updated 3 days ago Anna • 0
0
votes
0
replies
12
views
Spam: Understanding Laser Hair Removal?
healthyControlsPresenceChecker
4 days ago shahrozimmac 0
0
votes
0
replies
39
views
Processing of curatedmetagenomics
curatedMetagenomicData
4 days ago Edward • 0
7
votes
6
replies
669
views
Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it does not happen in Linux
GenomAutomorphism
written 18 days ago by • 0
0
votes
5
replies
183
views
all variables in design formula must be columns in colData (Deseq2) error
BatchQC batchinDeseq2. columnsincolData.
5 days ago • updated 3 days ago Galina • 0
0
votes
0
replies
44
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
RNASeq scRNAseq
4 days ago Bibi • 0
0
votes
6
replies
599
views
Numerical differences in DESeq2 output depending on different design matrix construction
DESeq2
6 days ago • updated 3 days ago Ken C • 0
2
votes
4
replies
217
views
DESeq2- Mysterious interaction suppresses DEGs
DESeq2 PCAplot RNA-Seq DesignModel
updated 3 days ago by 42k • written 6 days ago by • 0
0
votes
0
replies
56
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets allele_freq biomaRt getBM
6 days ago • updated 5 days ago Abiologist • 0
0
votes
3
replies
139
views
STRINGdb : error with string_db$plot_network()
STRINGdb
updated 6 days ago by ▴ 80 • written 6 days ago by • 0
10
votes
11
replies
1.9k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq rnaseq
updated 2 days ago by • 0 • written 6.8 years ago by ▴ 80
0
votes
7
replies
333
views
ChAMP installation issue
Cha ChAMP
updated 1 day ago by 66k • written 11 days ago by • 0
8
votes
41
replies
5.9k
views
Ensembl plants at annotationHub?
ensembl ensembldb plant arabidopsis thaliana annotationhub
updated 2 days ago by • 0 • written 5.5 years ago by ★ 4.0k
0
votes
2
replies
234
views
Visium RNA
metaMSdata
written 9 weeks ago by • 0
1
vote
8
replies
1.8k
views
enrichGOgradient color change
clusterProfiler
updated 20 hours ago by • 0 • written 6 months ago by • 0
2
votes
4
replies
394
views
seqlevelsStyle() not working
ensembldb genomei GenomeInfoDb
written 3 months ago by ▴ 70
3
votes
7
replies
907
views
Genes in open chromatin region
ChIPpeakAnno DiffBind
written 8 months ago by ▴ 10
4
votes
11
replies
1.6k
views
can't open mghp.osn.xsede.org
GenomeInfoDbData genomeinfodbdata
updated 1 day ago by ▴ 120 • written 9 months ago by ▴ 60
2
votes
4
replies
1.8k
views
slingshot: error with plot3d.SlingshotDataSet
slingshot plot3d.SlingshotDataSet
updated 1 day ago by • 0 • written 23 months ago by ▴ 10
0
votes
2
replies
757
views
Help with ENmix readidat
ENmix IlluminaHumanMethylationEPICmanifest
updated 3 days ago by 66k • written 2.0 years ago by • 0
4
votes
3
replies
1.0k
views
BayesSpace parameters for DLPFC Visium data
BayesSpace
written 3.1 years ago by ▴ 30
0
votes
1
reply
731
views
How to arrange multiple plots into one page in NOISeq?
noiseq RNA-seq quality control
updated 2 days ago by • 0 • written 4.7 years ago by ▴ 80
51 results • Page 1 of 2
Recent ...
Replies
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by Wei Shi ★ 3.6k
Your bam file names should be stored in a vector and then provided to the `files` parameter.
Comment: Volcano plot of scRNA-seq data not "centered" by Michael Love 42k
Agree with @atpoint Depending on the "groups" in single cell, the question of DE can be not well defined without inserting additional inf…
Answer: Volcano plot of scRNA-seq data not "centered" by ATpoint ★ 4.2k
Sounds like a normalization problem, but I am not sure how to help with that. Indeed you can use control genes, for example use the top 20%…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by ATpoint ★ 4.2k
I was talking about the command line version.
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0
I tried reading in the .csv version of the SAF with header = F and I'm still getting an error. I'm running: ``` counts <- featureCounts( …
Votes
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Answer: Documenting resources in an `ExperimentHub` package?
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Seurat/DESeq2 - single cell RNA-seq differential expression
Seurat to SingleCellExperiment Converting error in MAC
Awards • All
Popular Question to Wei Shi ★ 3.6k
Popular Question to Gordon Smyth 50k
Popular Question to jovel_juan ▴ 30
Scholar to ATpoint ★ 4.2k
Popular Question to boczniak767 ▴ 720
Locations • All
WEHI, Melbourne, Australia, 2 minutes ago
Spain, 13 minutes ago
UPF, Barcelona, Spain, 15 minutes ago
Germany, 22 minutes ago
Vietnam, 24 minutes ago
Traffic: 649 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