Log In
Sign Up
about
faq
Ask a question
Latest
News
Jobs
Tutorials
Tags
Users
New Post
Latest
News
Jobs
Tutorials
Tags
Users
Log In
Sign Up
About
Limit
all time
today
this week
this month
this year
Unanswered
All posts
Sort
Update
Answers
Bookmarks
Creation
Replies
Rank
Views
Votes
0
votes
0
replies
9
views
Alternatives to perform peptide identification in Bioconductor version '3.16'?
peptide
peptideidentification
rTANDEM
MSGFplus
Alternatives
3 hours ago
vaddanki
• 0
0
votes
0
replies
16
views
Distance between columns vs distance between rows and SVD
distance
svd
8 hours ago
Lenny186
• 0
0
votes
3
replies
1.3k
views
Which version of DESeq2 for R 4.1.2 64bit
DESeq2
written 12 months ago by
pam
• 0
0
votes
2
replies
42
views
find tandem repeats in DNA
DNA
repeats
23 hours ago • updated 9 hours ago
me-nobody
• 0
0
votes
0
replies
15
views
Splicing analysis with ASpli package gives an error when I use binGenome function.
S4Vectors
Aspli
12 hours ago
salvocomplicazioni1
• 0
4
votes
1
reply
44
views
on which data type limma::removeBatchEffect can be applyed?
batch
limma
updated 12 hours ago by
ATpoint
★ 2.1k • written 19 hours ago by
luca.s
▴ 40
0
votes
0
replies
24
views
In WGCNA which is the matrix on which the eigen decomposition is run to get the module eigen gene
WGCNA
17 hours ago
S
• 0
0
votes
0
replies
19
views
GOplots::GOChord with heatmaps?
GOChord
ggplot2::geom_polygon()
GOplot
ggplot2
17 hours ago
adrija.kalvisa
• 0
2
votes
8
replies
157
views
edgeR: Usage of estimated dispersion from replicates for pools of the same experiment
edgeR
RNAseq
1 day ago • updated 19 hours ago
k.roelfs
• 0
10
votes
8
replies
166
views
MA plot
MAplot
2 days ago • updated 21 hours ago
Nathalie
▴ 10
1
vote
3
replies
69
views
transcript name mapping between human and mouse
biomaRt
getLDS
updated 13 hours ago by
James W. MacDonald
62k • written 1 day ago by
Eric
• 0
0
votes
1
reply
33
views
I cannot install annotables package in Rstudio (macOS)
DESeq2
PackageTypeData
package
Annotation
updated 1 day ago by
Mike Smith
★ 5.8k • written 1 day ago by
m-bihie
• 0
2
votes
3
replies
87
views
How can I draw a barplot of complexheatmap according 'Tumor Type'
heatma
heatmaps
ComplexHeatmap
updated 1 day ago by
elefth.pavlos
▴ 30 • written 3 days ago by
Sooni
▴ 10
3
votes
5
replies
115
views
Design for DE analysis in tidybulk
DESeq2
designmatrix
edgeR
limma
tidybulk
updated 1 day ago by
Michael Love
39k • written 2 days ago by
aditya.m
▴ 10
0
votes
0
replies
28
views
Rsubread align every slow in mac but faster in windows
Rsubread
2 days ago
Wei
• 0
2
votes
4
replies
82
views
ComplexHeatmap - Default distance and hierarchical clustering methods
ComplexHeatmap
Complex
updated 1 day ago by
elefth.pavlos
▴ 30 • written 2 days ago by
Katharina
• 0
0
votes
1
reply
58
views
What is the difference between these two arguments for log fold change shrinkage?
DESeq
updated 12 hours ago by
Michael Love
39k • written 2 days ago by
m-bihie
• 0
0
votes
1
reply
50
views
DESeq2 in R 4.2.2
DESeq2
SummarizedExperiment
DelayedArray
updated 1 day ago by
ATpoint
★ 2.1k • written 2 days ago by
Danielle
• 0
0
votes
3
replies
77
views
Uniprot IDs and NCBI taxonomy IDs to coding sequences
ensembldb
biodbUniprot
updated 1 day ago by
James W. MacDonald
62k • written 2 days ago by
Peter
• 0
0
votes
0
replies
27
views
msa module crash
msa
2 days ago
systems
• 0
0
votes
0
replies
46
views
News:
Seeking members for BioC2023 organizing committee
BioC2023
Bioconductor
community
2 days ago • updated 1 day ago
Maria Doyle
▴ 10
0
votes
1
reply
56
views
about deltaPSI
SpliceWiz
updated 2 days ago by
a.wong
▴ 10 • written 2 days ago by
reza.rahman
• 0
2
votes
2
replies
101
views
Volcano Plot in R
cellxgenedp
updated 3 days ago by
Gordon Smyth
47k • written 3 days ago by
Rashi
▴ 10
0
votes
1
reply
863
views
limma: decideTests
affy
limma
affy
limma
updated 3 days ago by
Gordon Smyth
47k • written 15.1 years ago by
Al Ivens
▴ 270
0
votes
3
replies
106
views
trying to generate an object from a virtual class ("DataFrame")
InteractionSet
BuildReport
3 days ago • updated 2 days ago
martin.grigorov
• 0
1
vote
0
replies
108
views
News:
Join the Community Advisory Board -- upcoming elections -- deadline January 31st
Bioconductor
CAB
bioconductoroversight
community
6 weeks ago • updated 3 days ago
shepherl
3.4k
0
votes
1
reply
52
views
convert local downloaded bigwig files to .bed files
BRgen
BRGenomics
updated 3 days ago by
ATpoint
★ 2.1k • written 4 days ago by
kavator
▴ 20
0
votes
1
reply
66
views
NAs in some genes in topTable output
limma
topTable
updated 3 days ago by
Gordon Smyth
47k • written 4 days ago by
thkapell
▴ 10
0
votes
1
reply
52
views
limma on spectral data
limma
Metabolomics
DifferentialExpression
POMA
updated 4 days ago by
Gordon Smyth
47k • written 4 days ago by
wiscoyogi
• 0
0
votes
1
reply
86
views
Libraries loading error
DESeq2
clusterProfiler
enrichplot
updated 4 days ago by
Michael Love
39k • written 8 days ago by
joanna
• 0
0
votes
1
reply
69
views
How to use spike-in information (sequences from another species) with DESeq2::DESeq()
DESeq2
SpikeIn
Normalization
updated 4 days ago by
Michael Love
39k • written 4 days ago by
kalavattam
• 0
1
vote
3
replies
92
views
How to normalize long-read RNA-seq data for comparison with short-reads
NanoporeRNASeq
LongRead
Normalization
ShortRead
IlluminaRNASeq
4 days ago • updated 11 hours ago
Bernardo
• 0
0
votes
1
reply
56
views
Subset count data in DGEList using edgeR/DESeq2
edgeR
DMR
updated 4 days ago by
Michael Love
39k • written 4 days ago by
Fiona
• 0
0
votes
2
replies
72
views
scanBam
Rsamtools
Rsam
updated 3 days ago by
Martin Morgan
25k • written 5 days ago by
jojo.valensi
• 0
2
votes
3
replies
98
views
org.Hs.eg.db gives more than one ENTREZID for a gene symbol
org.Hs.eg.db
AnnotationDbi
updated 4 days ago by
James W. MacDonald
62k • written 4 days ago by
harish
• 0
0
votes
0
replies
20
views
INSPEcT: How to get the RNA dynamics for steady-state with INSPEcT minus
INSPEcT
4 days ago
MK
• 0
0
votes
2
replies
86
views
Diffbind (or maybe DESeq2) Fold clarification
DiffBind
updated 4 days ago by
Rory Stark
★ 4.6k • written 9 days ago by
slrpatty
• 0
2
votes
3
replies
845
views
How to work with dplyr verbs in the colData slot of SingleCellExperiment objects?
SingleCellExperiment
updated 5 days ago by
stefano.mangiola
▴ 10 • written 4.0 years ago by
ramonmassoni
▴ 10
1
vote
3
replies
106
views
SpliceWiz collateData error
SpliceWiz
written 8 days ago by
chiara.caprioli
• 0
2
votes
2
replies
104
views
[DESeq2] There is no difference in expression in my heatmap
DESeq2
heatmaps
5 days ago • updated 3 days ago
Sooni
▴ 10
0
votes
0
replies
67
views
Does verboseScatterplot in WGCNA package allow for highlighting a subset of genes
WGCNA
5 days ago
S
• 0
0
votes
1
reply
73
views
GRanges list convert into igraph format
GRanges
igraph
updated 3 days ago by
Lluís Revilla Sancho
▴ 700 • written 6 days ago by
Bogdan
▴ 660
0
votes
1
reply
78
views
Extracting interaction contrast when using user supplied model.matrix
DESeq2
updated 6 days ago by
Michael Love
39k • written 7 days ago by
idetoma
• 0
0
votes
3
replies
130
views
Genes for a given chromosome
GRangesobjectmodification
updated 4 days ago by
James W. MacDonald
62k • written 7 days ago by
Gamal
• 0
0
votes
0
replies
32
views
Error importing UCSC phastCons annotation in BigWig format
GenomicRanges
rtracklayer
7 days ago
Delta._.43
▴ 20
0
votes
0
replies
28
views
News:
Seeking Outreachy interns and project proposals
Bioconductor
Outreachy
community
7 days ago
Maria Doyle
▴ 10
0
votes
0
replies
54
views
Installation had non-zero exit status for all Bioconductor packages
Bioconductor
7 days ago
Anastasia
• 0
1
vote
3
replies
175
views
DESeq2 Installation Issue
DESeq2
updated 8 days ago by
Hervé Pagès
16k • written 8 days ago by
joanna
• 0
1
vote
1
reply
61
views
MSc student
genomes
updated 7 days ago by
Basti
▴ 540 • written 8 days ago by
Deeplaxmi
• 0
0
votes
1
reply
78
views
RUV with K more than 1.
RUVSeq
updated 8 days ago by
ATpoint
★ 2.1k • written 8 days ago by
star
▴ 10
43,703 results • Page
1 of 875
Recent ...
Replies
Comment: edgeR supports continuous covariates?
by
Jeffcgen2000
• 0
Hi Yunshun Chen and Gordon Smyth, does edgeR support mixed model? (https://en.wikipedia.org/wiki/Mixed_model)
Comment: find tandem repeats in DNA
by
me-nobody
• 0
OK. Thank you very much!
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Bernardo
• 0
Discussion for this question continuing on Biostars: https://www.biostars.org/p/9552419/
Comment: What is the difference between these two arguments for log fold change shrinkage
by
Michael Love
39k
Can you describe how the plots are different?
Answer: find tandem repeats in DNA
by
ATpoint
★ 2.1k
This is not related to Bioconductor so I suggest posting at biostars.org.
Votes
Answer: on which data type limma::removeBatchEffect can be applyed?
C: WGCNA: Understanding module-trait correlations
A: WGCNA: Understanding module-trait correlations
A: Differential expression analysis starting from TPM data
Comment: MSc student
Awards
• All
Scholar
to
Gordon Smyth
47k
Popular Question
to
ruben.drews
• 0
Student
to
luca.s
▴ 40
Commentator
to
Guido Hooiveld
★ 3.5k
Scholar
to
Basti
▴ 540
Locations
• All
The city by the bay,
11 minutes ago
India,
39 minutes ago
WEHI, Melbourne, Australia,
54 minutes ago
Russia,
2 hours ago
United States,
3 hours ago
Traffic: 191 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