0
votes
1
reply
25
views
Correcting partially penetrant batch effect
DESeq2
updated 2 hours ago by 32k • written 21 hours ago by ▴ 680
0
votes
1
reply
21
views
tximeta Error in UseMethod("filter_")
tximeta
updated 2 hours ago by 32k • written 15 hours ago by ▴ 20
1
vote
2
replies
18
views
Error Loading "org.Dm.eg.db" package
r org.Dm.eg.db
3 hours ago Amanda • 0
3
votes
2
replies
32
views
Complex Heatmap shows just one color
Heatmap ComplexHeatmap colorRamp
11 hours ago • updated 6 hours ago Assa Yeroslaviz ★ 1.5k
39
votes
27
replies
2.0k
views
.onLoad failed in loadNamespace() for 'org.Hs.eg.db'
org.Hs.eg.db pathview
updated 10 hours ago by • 0 • written 6 days ago by ▴ 150
0
votes
0
replies
19
views
PCA theoretical question for applied case
pcaMethods
11 hours ago Gero • 0
0
votes
1
reply
40
views
How to apply limma-trend or voom to batch corrected single cell data? (non-integer and negative values included)
MNNCorrect scMerge limma-trend
updated 22 hours ago by 42k • written 2 days ago by • 0
0
votes
1
reply
54
views
Error: package or namespace load failed for ‘org.Hs.eg.db’:
$operator atomicvectors
updated 1 day ago by 56k • written 1 day ago by • 0
2
votes
2
replies
65
views
Error: package or namespace load failed for ‘org.Mm.eg.db':
org.Mm.eg.db
1 day ago Jack • 0
0
votes
0
replies
23
views
Error running ExperimentHubData::makeExperimentHubMetadata on Windows 10
BiocCheck
1 day ago wewolski ▴ 10
0
votes
0
replies
19
views
motifBreakR error with custom BSgenome and snps.from.file function
GenomeInfoDb motifbreakR
1 day ago • updated 22 hours ago Chris Seidel ▴ 60
0
votes
11
replies
213
views
Aspli: error with gbCounts
Aspli ASpli
written 27 days ago by • 0
1
vote
1
reply
41
views
plotMA difference using or not a sub matrix
matrixsubset DESeq2 plotMA
updated 2 days ago by 32k • written 3 days ago by ▴ 10
1
vote
8
replies
115
views
DESeq problems
help DESeq2 DESeqDataSetFromMatrix rownames
updated 9 hours ago by 2.8k • written 3 days ago by • 0
0
votes
9
replies
607
views
Thoughts on computer purchase
computer
updated 2 days ago by 42k • written 15.0 years ago by ▴ 60
2
votes
2
replies
75
views
Error following instructions of CBioportal R-workshop example 2
MultiAssayExperiment cBioPortalData
updated 6 hours ago by 2.8k • written 3 days ago by • 0
0
votes
1
reply
21
views
ChIPQC error in previously working code (BAM association error)
chipqc
updated 2 days ago by • 0 • written 2 days ago by • 0
0
votes
6
replies
104
views
Sample quality weights for RNA-seq
DESeq2 limma weight
3 days ago • updated 1 day ago Naomi Altman ★ 6.0k
1
vote
2
replies
110
views
CUT&Tag differential peak analysis using Diffbind, with pre-calculated normalization factor.
DiffBind
12 days ago • updated 2 days ago mwong043 • 0
1
vote
1
reply
47
views
Failed to load "org.Mm.eg.db" package
org.Mm.eg.db
updated 2 days ago by ▴ 10 • written 2 days ago by • 0
1
vote
2
replies
48
views
Warning with the example of GSEA
fgsea fgse
updated 3 days ago by 2.8k • written 3 days ago by • 0
3
votes
2
replies
36
views
Biomart Errors
biomaRt
3 days ago Dr. Connie Brett ▴ 10
0
votes
2
replies
86
views
DepMap copy number
software error depmap
updated 11 hours ago by • 0 • written 6 months ago by • 0
0
votes
1
reply
35
views
High fold change reported for comparison of samples with zero values in all samples
edgeR
updated 3 days ago by 56k • written 3 days ago by • 0
0
votes
1
reply
33
views
Installation error if message implemented in .Rprofile
Rsamtools
updated 3 days ago by ★ 4.9k • written 3 days ago by • 0
2
votes
1
reply
29
views
Warning in EnhancedVolcano plot
volcano-plot EnhancedVolcano
updated 3 days ago by 2.8k • written 3 days ago by ★ 1.5k
0
votes
2
replies
46
views
discrepancy in number of samples
TCGAquery_recount2 TCGAbiolinks
updated 2 days ago by 2.8k • written 3 days ago by ▴ 20
0
votes
0
replies
13
views
layout has more positions than samples but omixerRand doesn't randomize the samples
Omixer
3 days ago Lluís Revilla Sancho ▴ 630
0
votes
1
reply
40
views
ChIPseeker: Annotating Peaks with both upstream and downstream gene
ChIPseeker
updated 2 days ago by ▴ 10 • written 3 days ago by • 0
1
vote
15
replies
178
views
between and within subjects design with batch correction
RNASeqData BatchEffect paired DESeq2
4 days ago • updated 1 day ago demisa • 0
0
votes
1
reply
49
views
EnhancedVolcano plot with colCustom
EnhancedVolcano
updated 3 days ago by 2.8k • written 3 days ago by • 0
0
votes
2
replies
78
views
Downloading org.Mm.eg.db after R reinstall
org.Mmu.eg.db Transcriptomics
4 days ago • updated 3 days ago Kate • 0
1
vote
1
reply
40
views
Enhanced Volcano Plot Controlling Color Layers
EnhancedVolcano
4 days ago dk0319 • 0
4
votes
2
replies
66
views
TargetsFile. Where it is?
Limma ArrayExpress GEO
updated 4 days ago by 56k • written 4 days ago by • 0
0
votes
0
replies
25
views
Missing sample
OSAT
4 days ago Lluís Revilla Sancho ▴ 630
0
votes
1
reply
51
views
Query regarding edgeR and limma
limma readDGE edgeR
updated 4 days ago by 56k • written 5 days ago by • 0
1
vote
0
replies
28
views
News: Terra / AnVIL R / Bioconductor Popup Workshops
AnVIL workshop Bioconductor Terra
4 days ago shepherl 2.6k
0
votes
0
replies
22
views
News: Bioconductor Release 3.12 and Bioconductor Devel 3.13 Code Freeze Deadlines!
deadline Bioconductor devel release
4 days ago shepherl 2.6k
0
votes
0
replies
29
views
Duplicate row.names when building SummarizedExperiment with make_se in DEP
DEP
4 days ago hele7 ▴ 20
0
votes
0
replies
29
views
Job: Biostatistics Research Associate, York, UK
QTL fourier TimeSeriesExperiment timecoursedata
4 days ago Daphne • 0
0
votes
0
replies
36
views
How can I correctly normalize　RNA--seq data and find DEGs in complicated data set with ImpluseDE2?
ImpluseDE2
4 days ago • updated 3 days ago MU • 0
1
vote
1
reply
52
views
simplifyEnrichment install error
package Rversion Install simplifyEnrichment
updated 4 days ago by 2.6k • written 4 days ago by ▴ 10
4
votes
14
replies
727
views
Couldn't load org.Hs.eg.db
org.Hs.eg.db
updated 15 hours ago by • 0 • written 4 days ago by ▴ 20
3
votes
3
replies
80
views
Using DESeq2 to identify changing transcriptional activity in a metagenome
Metagenomics DESeq2 Metatranscriptomics
updated 4 days ago by 32k • written 5 days ago by • 0
0
votes
10
replies
163
views
Problem with estimateSizeFactors due to avgTxLength
DESeq2
5 days ago • updated 1 day ago Mark • 0
0
votes
0
replies
36
views
News: Nominations for Bioconductor 2021 Awards!
Awards Recognition Bioconductor Bioc2021
5 days ago shepherl 2.6k
0
votes
0
replies
33
views
News: Bioconductor 3.13 New Package Submission Deadline
release Submission newpackage Release Deadline
5 days ago shepherl 2.6k
0
votes
0
replies
31
views
News: Bioconductor Release 3.13 Schedule
Release release
6 days ago • updated 5 days ago shepherl 2.6k
1
vote
1
reply
54
views
Does DESeq2 need "scale_counts" for GTEx and TCGA data from recount2 (TCGAquery_recount2)?
TCGAbiolinks RECOUNT2 DESeq2
updated 5 days ago by 32k • written 5 days ago by ▴ 20
0
votes
2
replies
59
views
Failure to save txDb using saveDb in BiocFileCache location other than /tmp
tximeta BiocFileCache
updated 5 days ago by 32k • written 6 days ago by • 0
40,571 results • Page 1 of 812
Recent ...
Replies
Answer: Correcting partially penetrant batch effect by Michael Love 32k
Not really, the whole point is that the replicates account for within group variability. You can always access quality of a sample through …
Answer: tximeta Error in UseMethod("filter_") by Michael Love 32k
Could you try `as.data.frame(coldata)` before providing to `tximeta`? I may need to have a more explicit argument check there, as there cou…
Comment: Error Loading "org.Dm.eg.db" package by Amanda • 0
Thanks so much!
Comment: Error Loading "org.Dm.eg.db" package by Chris Seidel ▴ 60
This issue has been raised in the past (including just yesterday). Apparently it's specific to RStudio. See: https://support.bioconductor.o…
Comment: Complex Heatmap shows just one color by Assa Yeroslaviz ★ 1.5k
thanks, I figure this was my problem.
Votes
Comment: Error Loading "org.Dm.eg.db" package
Comment: Complex Heatmap shows just one color
Answer: Complex Heatmap shows just one color
Answer: Complex Heatmap shows just one color
Answer: Error: package or namespace load failed for ‘org.Mm.eg.db':
Awards • All
Scholar to Aaron Lun ★ 26k
Scholar to Michael Love 32k
Scholar to Kevin Blighe 2.8k
Scholar to James W. MacDonald 56k
Popular Question to Luo Weijun ★ 1.5k
Locations • All
WEHI, Melbourne, Australia, 2 minutes ago
United States, 6 minutes ago
Spain, 8 minutes ago
Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia, 9 minutes ago
United States, 17 minutes ago
Traffic: 296 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