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
8
views
LRT, more than two conditions and pairwise comparisons
DESeq2
2 hours ago
boczniak767
▴ 720
0
votes
0
replies
10
views
How to run allelic imbalance in apeglm
apeglm
2 hours ago
euge.eugenio
▴ 20
7
votes
5
replies
544
views
Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it does not happen in Linux
GenomAutomorphism
14 days ago • updated 2 hours ago
robersy
• 0
0
votes
4
replies
67
views
all variables in design formula must be columns in colData (Deseq2) error
BatchQC
batchinDeseq2.
columnsincolData.
11 hours ago • updated 1 hour ago
Galina
• 0
0
votes
0
replies
19
views
scRNA-seq data trained model can be used for predictions on bulk RNA-seq data?
RNASeq
scRNAseq
9 hours ago • updated 8 hours ago
Bibi
• 0
0
votes
1
reply
57
views
Subsetting RNAseq data | voomaByGroup()
limma
updated 7 hours ago by
Gordon Smyth
50k • written 1 day ago by
Anna
• 0
0
votes
4
replies
381
views
Numerical differences in DESeq2 output depending on different design matrix construction
DESeq2
2 days ago • updated 3 hours ago
Ken C
• 0
0
votes
2
replies
111
views
DESeq2- Mysterious interaction suppresses DEGs
DESeq2
PCAplot
RNA-Seq
DesignModel
updated 1 day ago by
Michael Love
42k • written 2 days ago by
shaunpeterson
• 0
0
votes
0
replies
31
views
ERROR; return code from pthread_create() is 22
affy
1 day ago • updated 12 hours ago
pickingastar
• 0
0
votes
0
replies
36
views
Minor allele data from grch38 giving NAs from getBM ?
BioMartGOGeneSets
allele_freq
biomaRt
getBM
1 day ago • updated 11 hours ago
Abiologist
• 0
0
votes
3
replies
101
views
STRINGdb : error with string_db$plot_network()
STRINGdb
updated 2 days ago by
damian.szk
▴ 80 • written 2 days ago by
ninidea
• 0
0
votes
2
replies
110
views
DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set
DECIPHER
3 days ago
makala
• 0
2
votes
2
replies
382
views
Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(paste("networks", net.suid, "tables", tbl, sep = "/"), : object 're…
RCy3
7 days ago • updated 3 days ago
Matthew Thornton
▴ 360
0
votes
0
replies
50
views
determine k during RUVSeq
RUVSeq
RUVnormalize
3 days ago
Ειρήνη
• 0
2
votes
3
replies
104
views
Problem installing ChAMP on a MacBook
ChAMP
updated 3 days ago by
shepherl
3.9k • written 3 days ago by
Galia
• 0
0
votes
0
replies
51
views
ReactomeGSA for RNASeq
ReactomeGSA
BatchEffect
RNASeqData
3 days ago
Shaimaa Gamal
• 0
0
votes
0
replies
14
views
Spam:
Unveiling Unmatched Best Custom Patches
SIMAT
3 days ago
oliverelijhan
0
0
votes
0
replies
68
views
ChIPseeker peak_Profile_Heatmap color palette
ChIPseeker
3 days ago
Anton01
• 0
0
votes
0
replies
45
views
GAGE results interpretation with gene-foldchange as input for cases of all-negative foldchange
GO
KEGG
gage
pathview
3 days ago
danalvoronov
▴ 10
0
votes
0
replies
41
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq
WGCNA
3 days ago
k200987
• 0
2
votes
5
replies
215
views
Error while installing BiocManager::install("org.Vdahliae.eg.db")
org.vdahlaie.eg.db
Bioconductor
4 days ago • updated 2 days ago
Patadù
▴ 10
0
votes
4
replies
130
views
error running enricher from clusterprofiler
clusterProfiler
cluster
4 days ago
Yael
• 0
2
votes
3
replies
124
views
How to correctly adjust for gender in edgeR
design
glm
edgeR
updated 3 days ago by
Gordon Smyth
50k • written 4 days ago by
Guillermo
• 0
2
votes
1
reply
73
views
How to design DEXSeq formula for multiple variables
DEXSeq
updated 4 days ago by
Alejandro Reyes
★ 1.9k • written 6 days ago by
Sara
• 0
4
votes
9
replies
253
views
Can DESeq2 rlog normalized matrix reflects time course result directly?
DESeq2
timecoursedata
GeneExpression
updated 3 days ago by
ATpoint
★ 4.1k • written 4 days ago by
pangtaihin
• 0
0
votes
0
replies
39
views
Difference in Contrast in DiffBind
DiffBind
4 days ago
zzrammal
• 0
1
vote
2
replies
95
views
Erroe when using makeOrgPackageFromNCBI()
AnnotationForge
4 days ago
Patadù
▴ 10
10
votes
10
replies
1.9k
views
SGSeq: moving toward diffex from SGSeq analysis
sgseq
rnaseq
updated 3 days ago by
Leonard Goldstein
▴ 220 • written 6.7 years ago by
Sylvain Foisy
▴ 80
0
votes
3
replies
113
views
Assymetric MA plot with no overall trend
DESeq2
DifferentialExpression
updated 4 days ago by
Michael Love
42k • written 5 days ago by
Kasper
• 0
0
votes
2
replies
130
views
Batch effect correction: methylome data
sesame
BatchEffect
MethylationArray
updated 5 days ago by
zhouwanding
▴ 10 • written 7 days ago by
Seungmin
• 0
1
vote
0
replies
331
views
News:
Last Call: Nominations for Bioconductor Awards 2024! Deadline May 15
Recognition
Awards
Bioconductor
Bioc204
8 weeks ago • updated 5 days ago
shepherl
3.9k
1
vote
2
replies
128
views
Can log2cpm be used for proteomics data normalization?
metaMSdata
5 days ago • updated 4 days ago
Daniel
• 0
0
votes
1
reply
95
views
normalization across different species for DESeq2 analysis
DESeq2
normalization
Normalization
acrossspecies
updated 5 days ago by
Michael Love
42k • written 6 days ago by
piemmea
• 0
1
vote
0
replies
62
views
News:
Ensembl 112 has been released.
ensembldb
biomaRt
ensemblrelease
5 days ago
Aleena
▴ 30
0
votes
0
replies
55
views
QSEA- Extraction of Normalized methylation across the samples
qsea
ngsReports
correlation
5 days ago
Researcher
• 0
0
votes
8
replies
502
views
Can I trust the differential expression analysis when the two groups overlap on the PCA?
DESeq2
pcaExplorer
updated 4 days ago by
BioinfGuru
▴ 30 • written 6 days ago by
Eric Katagirya
• 0
1
vote
3
replies
248
views
How to approach time course RNAseq data? Seeing 80% DE genes in timepoint groups
DifferentialExpression
TimeCourse
timeOmics
edgeR
RNAseq
updated 4 days ago by
Gordon Smyth
50k • written 5 days ago by
Ashley
• 0
3
votes
4
replies
284
views
Store output of matchPWM()
biostrings
Biostrings
18 days ago • updated 5 days ago
mat149
▴ 70
1
vote
2
replies
243
views
How can I create a eigencorplot of pca created from deseq2 object with PCAtools
DESeq2
eigencorplot
PCAtools
5 days ago • updated 3 days ago
BioinfGuru
▴ 30
0
votes
2
replies
103
views
Problem finding certain variables when importing a public database GSE73103
GSEABase
GenomicDistributionsData
6 days ago • updated 5 days ago
Yveto
• 0
0
votes
1
reply
140
views
Gene set enrichment analysis
clusterProfiler
GeneSetEnrichment
updated 6 days ago by
Guido Hooiveld
★ 4.0k • written 7 days ago by
aogunbaw
• 0
0
votes
3
replies
180
views
ChAMP installation issue
Cha
ChAMP
6 days ago • updated 5 days ago
e1271094
• 0
0
votes
3
replies
8.9k
views
SingleR Label.Ont
SingleR
updated 8 days ago by
Denis
• 0 • written 8 months ago by
saeed.khalili
• 0
0
votes
1
reply
171
views
Differential gene expression analysis results
DESeq2
DifferentialExpression
updated 9 days ago by
ATpoint
★ 4.1k • written 9 days ago by
sajadahmad41454
• 0
1
vote
2
replies
272
views
Multi-factorial, longitudinal disease progression analysis with unbalanced patient sampling - duplicateCorrelation or blocking?
rna-seq
duplicateCorrelation
limma
voom
10 days ago • updated 9 days ago
Dylan.Sheerin
• 0
0
votes
0
replies
80
views
Recommendations on deploying cytoviewer shiny.appobj to shinyapps.io?
cytoviewer
ShinyApps
9 days ago
neilzhao
▴ 30
0
votes
1
reply
108
views
normalization using Deseq2
DESeq2
rnaseqGene
Normalization
updated 10 days ago by
ATpoint
★ 4.1k • written 10 days ago by
sajadahmad41454
• 0
2
votes
7
replies
389
views
deseq2 results
DESeq2
DifferentialExpression
rnaseqGene
DifferentialRegulation
11 days ago • updated 8 days ago
sajadahmad41454
• 0
0
votes
0
replies
75
views
Treeio as.treedata function seq lenght error
treeio
11 days ago
nromerov
• 0
2
votes
2
replies
279
views
error in limma , contrast.matrix Number of rows of contrast matrix must match number of coefficients in fit
limma
12 days ago • updated 6 days ago
zzrammal
• 0
1,739 results • Page
1 of 35
Recent ...
Replies
Comment: all variables in design formula must be columns in colData (Deseq2) error
by
Galina
• 0
thank you!
Comment: all variables in design formula must be columns in colData (Deseq2) error
by
ATpoint
★ 4.1k
coldata_rat <- data.frame(conditions=..., batch=...)
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
robersy
• 0
Thank you all for your comments. I will follow your suggestions.
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
Ken C
• 0
Hi Michael, thanks a lot for your prompt reply! Not sure if this is appropriate or if you are the right person to ask -- is there anything…
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
Ken C
• 0
Well, if I look at genes with baseMean>50, then the relative absolute difference in log2FoldChange (say over the absolute log2FoldChange of…
Votes
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Awards
• All
Popular Question
to
euge.eugenio
▴ 20
Popular Question
to
Dario Strbenac
★ 1.5k
Popular Question
to
Vincent J. Carey, Jr.
6.7k
Popular Question
to
Koen Van den Berge
▴ 180
Popular Question
to
shepherl
3.9k
Locations
• All
Germany,
6 minutes ago
United States,
15 minutes ago
Poland,
17 minutes ago
Germany,
18 minutes ago
United States,
21 minutes ago
Traffic: 353 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