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
8
replies
322
views
DESeq2 output used for PCA plot on R studio
DESeq2
RSTUDIO
PCAtools
updated 7 days ago by
swbarnes2
★ 1.3k • written 9 days ago by
Aaliya
• 0
0
votes
0
replies
65
views
News:
Interested in the analysis of Spatial Omics data?
tidySpatialExperiment
SpatialExperiment
MoleculeExperiment
9 days ago
info
▴ 10
1
vote
4
replies
194
views
minfi::read.metharray.exp
minfiData
minfi
updated 8 days ago by
Basti
▴ 780 • written 10 days ago by
clacarion
• 0
0
votes
2
replies
238
views
featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_get_next_read_BIN: Assertion `l_name < 256' failed. Aborted (core dumpe…
metaMSdata
9 days ago • updated 7 days ago
shuwangxinze1996
• 0
1
vote
2
replies
980
views
DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, parametric = FALSE, : NA/NaN/Inf in foreign function call (arg 1)"
DMRcate
Gviz
updated 9 days ago by
Tim Peters
▴ 170 • written 14 months ago by
jose.ramirez1
▴ 10
0
votes
2
replies
149
views
limma-voom: Calculate the log-fold change in gene expression within a sample
limma
RNASeq
voom
written 9 days ago by
taur.vil
• 0
3
votes
3
replies
213
views
DESeq2 - dispersion estimation when there is none
DESeq2
updated 9 days ago by
Michael Love
41k • written 10 days ago by
WardDeb
• 0
1
vote
4
replies
215
views
Error EPICv2 ChAMP
ChAMPdata
IlluminaHumanMethylationEPICv2anno.20a1.hg38
ChAMP
updated 10 days ago by
James W. MacDonald
65k • written 14 days ago by
Mirella Aurora
• 0
0
votes
1
reply
119
views
FDR via q-value
qvalue
updated 10 days ago by
James W. MacDonald
65k • written 13 days ago by
John
• 0
0
votes
5
replies
285
views
Error for AnnotationForge makeOrgPackageFromNCBI function
OrgDb
AnnotationForge
updated 8 days ago by
James W. MacDonald
65k • written 11 days ago by
Gayatri
• 0
0
votes
2
replies
194
views
RNAseq:Technical replicates from different batches
technicalReplicates
BatchEffect
limma
RNASeq
13 days ago • updated 10 days ago
catv
• 0
0
votes
3
replies
1.2k
views
News:
European Bioconductor Conference 2023 planning
Europe
Conference
EuroBioC
Events
News
updated 10 days ago by
lauryfriese932
• 0 • written 18 months ago by
Maria Doyle
▴ 70
6
votes
12
replies
4.8k
views
BiocFileCache/ExperimentHub/AnnotationHub temporary ERROR
BiocFileCache
AnnotationHub
ExperimentHub
6 months ago • updated 10 days ago
shepherl
3.9k
1
vote
13
replies
369
views
Trying to use enrichGO
clusterProfiler
GenomicDistributionsData
KEGG
11 days ago • updated 7 days ago
fernanda.backsouza
▴ 10
0
votes
0
replies
76
views
Unlocking Potential: NURS FPX Strategies and Insights
levi
NURSFPX
ragene20sttranscriptcluster.db
ssrch
11 days ago
vaxahey107
• 0
14
votes
17
replies
1.1k
views
Why p value inconsistent when using different number of pathway score?
limma
12 days ago • updated 1 day ago
Chris
• 0
0
votes
0
replies
90
views
I am trying to detect alternative splicing.
ASpli
12 days ago
Sebashish
• 0
3
votes
2
replies
202
views
Cannabis and KEGGgraph
KEGGREST
GenomicDistributionsData
KEGGgraph
KEGG
updated 10 days ago by
Guido Hooiveld
★ 3.9k • written 12 days ago by
fernanda.backsouza
▴ 10
0
votes
3
replies
135
views
Error retrieving ensembl gene id using biomaRt...
biomaRt
updated 13 days ago by
James W. MacDonald
65k • written 13 days ago by
bas_work
▴ 30
2
votes
2
replies
178
views
OrgDb for maize
clusterProfiler
OrgDb
biomaRt
Zea_mays
updated 13 days ago by
James W. MacDonald
65k • written 13 days ago by
sansan
• 0
1
vote
0
replies
262
views
Tutorial:
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
bioconductor
Install
13 days ago
BioinfGuru
▴ 30
4
votes
6
replies
400
views
FilterByExpr low counts with small sample size
edgeR
15 days ago • updated 10 days ago
Jonathan
▴ 10
0
votes
2
replies
122
views
How to make DGEList and design matrix by edgeR package
DGEList
edgeR
13 days ago
prity6459
• 0
0
votes
3
replies
177
views
Finding DEGs by using edgeR
subsettingdata
edgeR
designmatrix
updated 13 days ago by
Gordon Smyth
50k • written 14 days ago by
prity6459
• 0
3
votes
1
reply
160
views
Log-cpm values from limma
limma
edgeR
RNASeq
updated 13 days ago by
Gordon Smyth
50k • written 14 days ago by
Shaimaa Gamal
• 0
0
votes
4
replies
184
views
FGSEA pre-ranked input in increasing order or decreasing
fgsea
14 days ago • updated 13 days ago
sropri
• 0
0
votes
3
replies
154
views
Different number of exons in reference genome affects DEXSeq analysis
DEXSeq
updated 2 days ago by
Alejandro Reyes
★ 1.9k • written 14 days ago by
Alessia
• 0
0
votes
1
reply
146
views
Adding columns to DEXSeqResults object
DEXSeq
updated 14 days ago by
Alejandro Reyes
★ 1.9k • written 16 days ago by
Clyde
• 0
0
votes
0
replies
114
views
Warning while loading DEP package
DEP
updated 14 days ago by
shepherl
3.9k • written 14 days ago by
Namrata
• 0
0
votes
1
reply
122
views
rlog transformation
DESeq2
updated 14 days ago by
Michael Love
41k • written 14 days ago by
ishij9717
• 0
0
votes
1
reply
104
views
ONT long-read RNA sequencing - data analysis options
DESeq2
LongRead
DEXSeq
IsoformSwitchAnalyzeR
RNASeq
updated 14 days ago by
Michael Love
41k • written 14 days ago by
09191919
• 0
1
vote
2
replies
694
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
15 days ago • updated 6 days ago
ussarizona
▴ 10
0
votes
1
reply
128
views
covariate with negative and positive values
DESeq2
updated 14 days ago by
Michael Love
41k • written 15 days ago by
Brynn
• 0
0
votes
1
reply
138
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 14 days ago by
ATpoint
★ 4.1k • written 15 days ago by
quanah.hudson
• 0
1
vote
2
replies
207
views
significant difference of p-values with dream() after updating VariancePartition
variancePartition
14 days ago
Le
• 0
1
vote
2
replies
150
views
Error in champ.load(): The following specified files do not exist
ChAMP
15 days ago • updated 14 days ago
Sherin
• 0
0
votes
1
reply
97
views
Input Question for deseq.r
RSeqAn
updated 14 days ago by
ATpoint
★ 4.1k • written 15 days ago by
Nina
• 0
0
votes
4
replies
229
views
Differential peaks that were not identified in diffbind were identified in diseq2
DiffBind
DESeq2
ATACSeq
15 days ago • updated 12 days ago
lonn
• 0
0
votes
7
replies
289
views
Methylation Analysis experiment design using Limma
DNAMethylation
limma
methylationArrayAnalysis
15 days ago • updated 9 days ago
hortense96
• 0
0
votes
0
replies
73
views
News:
Services
flowBeads
15 days ago
creativepeptides2018
• 0
0
votes
0
replies
76
views
Enzyme Engineering
BioTIP
15 days ago
bocchemistry
• 0
0
votes
0
replies
75
views
News:
TIDES USA 2024
flowBeads
15 days ago
bocsci11
• 0
0
votes
0
replies
88
views
Syntaxt Error in IsorcorrectoR package with Molecule Info File
Syntaxerror
IsoCorrectoR
16 days ago
Maliha Tabassum
• 0
0
votes
4
replies
182
views
flowStats Search Error
flowStats
updated 16 days ago by
shepherl
3.9k • written 16 days ago by
tholmes
• 0
3
votes
18
replies
2.9k
views
News:
List of Deprecated Packages for Bioc3.18
Deprecation
devel
Bioconductor
Devel
10 months ago • updated 15 days ago
shepherl
3.9k
0
votes
1
reply
135
views
SNP locus package for mouse?
SNPlocs
packFinder
updated 16 days ago by
James W. MacDonald
65k • written 19 days ago by
tian.liu0720
• 0
1
vote
2
replies
130
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
16 days ago
Ana
• 0
0
votes
5
replies
1.7k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 12 months ago by
mauricio.microbiol
• 0
0
votes
1
reply
118
views
what is the sampleFiles
chipseq
updated 16 days ago by
James W. MacDonald
65k • written 16 days ago by
zhulin
• 0
1
vote
1
reply
182
views
Differentially expressed genes in monocle pseudotime
monocle
updated 16 days ago by
Gordon Smyth
50k • written 18 days ago by
kthapa
• 0
1,000 results • Page
2 of 20
Recent ...
Replies
Answer: DESeq2 v1.35.0
by
Michael Love
41k
That is not a release (odd 'y' digit). See Bioconductor help pages: https://contributions.bioconductor.org/description.html#description-ver…
Comment: Although I successfully installed the package "simpleaffy'' , I cannot library i
by
James W. MacDonald
65k
Please don't piggyback on posts from 2.3 years ago. If you have a question, post as a new question.
Answer: DESeq2 v1.35.0
by
James W. MacDonald
65k
Odd release versions indicate a devel version, which upon release is incremented to the next even version, so you won't be able to find tha…
Comment: Although I successfully installed the package "simpleaffy'' , I cannot library i
by
fatinataly
• 0
I tried also with oligo does not work, any other suggestion?
Comment: More regions in union when increasing DBA$config$mergeOverlap
by
Ian D.
▴ 70
Hello. Thanks for the reply. Sorry about this. My testing is telling me that 1 is the default (a gap), not -1 (1bp overlap). Negative …
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
Awards
• All
Popular Question
to
gene_bioconductor
▴ 10
Popular Question
to
rohitsatyam102
▴ 20
Popular Question
to
shepherl
3.9k
Popular Question
to
siajunren
• 0
Scholar
to
Rory Stark
★ 5.2k
Locations
• All
France,
14 minutes ago
European Union,
20 minutes ago
United States,
23 minutes ago
United States,
1 hour ago
United States,
1 hour ago
Traffic: 681 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