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
1
vote
2
replies
399
views
DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
DESeq2
10 days ago • updated 1 day ago
ussarizona
▴ 10
0
votes
1
reply
124
views
DESEQ2 output gives multiple groups when only 2 groups are present
DESeq2
updated 9 days ago by
ATpoint
★ 4.0k • written 10 days ago by
quanah.hudson
• 0
0
votes
7
replies
260
views
Methylation Analysis experiment design using Limma
DNAMethylation
limma
methylationArrayAnalysis
10 days ago • updated 4 days ago
hortense96
• 0
0
votes
0
replies
64
views
News:
Services
flowBeads
10 days ago
creativepeptides2018
• 0
0
votes
0
replies
62
views
Enzyme Engineering
BioTIP
10 days ago
bocchemistry
• 0
0
votes
0
replies
64
views
News:
TIDES USA 2024
flowBeads
10 days ago
bocsci11
• 0
0
votes
1
reply
117
views
covariate with negative and positive values
DESeq2
updated 9 days ago by
Michael Love
41k • written 11 days ago by
Brynn
• 0
0
votes
1
reply
126
views
Adding columns to DEXSeqResults object
DEXSeq
updated 9 days ago by
Alejandro Reyes
★ 1.9k • written 11 days ago by
Clyde
• 0
0
votes
0
replies
80
views
Syntaxt Error in IsorcorrectoR package with Molecule Info File
Syntaxerror
IsoCorrectoR
11 days ago
Maliha Tabassum
• 0
1
vote
2
replies
116
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
11 days ago
Ana
• 0
0
votes
1
reply
103
views
what is the sampleFiles
chipseq
updated 11 days ago by
James W. MacDonald
65k • written 11 days ago by
zhulin
• 0
0
votes
4
replies
158
views
flowStats Search Error
flowStats
updated 11 days ago by
shepherl
3.8k • written 12 days ago by
tholmes
• 0
0
votes
0
replies
79
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
12 days ago
Virangika
• 0
0
votes
0
replies
59
views
[ChIPseeker] Unable to perform gene ontology analysis
ChIPseeker
12 days ago
Henry
▴ 10
0
votes
3
replies
178
views
Interaction Terms in DESeq2 - Shrinkage
DESeq2
updated 11 days ago by
Michael Love
41k • written 12 days ago by
andrebolerbarros
▴ 20
2
votes
3
replies
300
views
ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with variable number of continuous columns
ComplexHeatmap
12 days ago • updated 11 days ago
daniel.carbajo
• 0
0
votes
4
replies
236
views
DEG with low counts
DESeq2
updated 8 days ago by
Michael Love
41k • written 13 days ago by
Rajat
• 0
1
vote
2
replies
417
views
GSVA error
GSVA
13 days ago • updated 12 days ago
Alex
• 0
0
votes
1
reply
115
views
Deseq2 Rlog transformation
DESeq2
updated 12 days ago by
ATpoint
★ 4.0k • written 13 days ago by
Sahar
• 0
1
vote
1
reply
166
views
Differentially expressed genes in monocle pseudotime
monocle
updated 11 days ago by
Gordon Smyth
50k • written 13 days ago by
kthapa
• 0
0
votes
1
reply
121
views
SNP locus package for mouse?
SNPlocs
packFinder
updated 11 days ago by
James W. MacDonald
65k • written 14 days ago by
tian.liu0720
• 0
2
votes
2
replies
152
views
[DiffBind] Obtaining normalization factors
DiffBind
15 days ago • updated 11 days ago
Henry
▴ 10
1
vote
2
replies
175
views
Design Matrix within group comparison more than two groups
DESeq2
15 days ago • updated 14 days ago
hemantcnaik
• 0
0
votes
1
reply
121
views
Bioinformatics student
Des
DESeq2
updated 15 days ago by
hemantcnaik
• 0 • written 15 days ago by
Sahar
• 0
2
votes
2
replies
175
views
How many of my genes from my gene list are in each KEGG pathway?
Pathways
clusterProfiler
gseKEGG
KEGG
15 days ago
julia_mcdonough
• 0
0
votes
0
replies
73
views
News:
Important Release 3.18 Freeze Announcment
Release
release
Bioconductor
Bioconducto
15 days ago
shepherl
3.8k
3
votes
3
replies
179
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array
BiocGenerics
BiocParallel
Biobase
15 days ago • updated 9 days ago
jacques.imbert
• 0
2
votes
2
replies
153
views
ComplexHeatmap: change the names of a HeatmapAnnotation object
ComplexHeatmap
15 days ago • updated 12 days ago
daniel.carbajo
• 0
0
votes
3
replies
232
views
A ComBat-seq issue: the covariates are confounded
ComBat-seq
sva
updated 9 days ago by
W. Evan Johnson
▴ 850 • written 15 days ago by
schlumbohm
• 0
0
votes
0
replies
78
views
Cannot use `readVcf()` on a file created with `writeVcf()`
VariantAnnotation
15 days ago
Stevie Pederson
• 0
2
votes
2
replies
363
views
[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind
Normalization
16 days ago • updated 15 days ago
Henry
▴ 10
0
votes
0
replies
88
views
News:
Course Manipulation of NGS Data for Genomic and Population Genetics Analyses
sequencing
Sequencing
SequencingData
16 days ago
communication
• 0
4
votes
8
replies
360
views
Memory errors using read.bismark?
dmrseq
bsseq
updated 8 days ago by
Peter Hickey
▴ 740 • written 16 days ago by
Juan Higareda
• 0
3
votes
6
replies
240
views
Surrogate variable analysis for paired RNA seq experiment
RUVSeq
sva
16 days ago
nhaus
▴ 30
0
votes
1
reply
127
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 11 days ago by
kamryncole1963
• 0 • written 16 days ago by
Sara
• 0
0
votes
1
reply
161
views
DESeq2 gives an error and R crashes
DESeq2
16 days ago
Shefali
• 0
1
vote
2
replies
223
views
How to retrieve detailed regression results from deseq2
DESeq2
16 days ago • updated 8 days ago
Weiqian
▴ 10
5
votes
9
replies
869
views
Light difference when using coef vs omit a group when compare 3 groups.
limma
17 days ago • updated 9 days ago
Chris
• 0
0
votes
0
replies
116
views
LearnTaxa with custom Silva
DECIPHER
LearnTaxa
17 days ago
Eryn
• 0
0
votes
0
replies
79
views
queryDGIdb lexical error for some genes
lexicalerror
rDGIdb
DGIdb
json
17 days ago
Dennis
• 0
0
votes
1
reply
139
views
compareCluster dotplot: how to modify the genesets order
DOSE
enrichplot
clusterProfiler
updated 13 days ago by
Guido Hooiveld
★ 3.9k • written 17 days ago by
Lucie
• 0
0
votes
4
replies
206
views
Storing directories inside an ExperimentHub package?
ExperimentHub
17 days ago • updated 16 days ago
Tim Barry
• 0
8
votes
23
replies
871
views
Convert Seurat Object to Summarised Experiment or ExpressionSet
SummarizedExperiment
ExpressionSet
updated 16 days ago by
Robert Castelo
★ 3.3k • written 17 days ago by
Bine
▴ 40
1
vote
3
replies
327
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 12 days ago by
Gordon Smyth
50k • written 17 days ago by
Simran
• 0
0
votes
1
reply
136
views
BAM write error in HTSeqGenie
HTSeqGenie
BAM
updated 18 days ago by
James W. MacDonald
65k • written 18 days ago by
zh9118
• 0
0
votes
1
reply
144
views
IgG control in RIP-seq with Deseq2
DESeq2
RIP-seq
updated 17 days ago by
Michael Love
41k • written 18 days ago by
Adelaide
• 0
5
votes
6
replies
400
views
Not fully paired differential gene expression analysis
edgeR
DifferentialExpression
updated 14 days ago by
ATpoint
★ 4.0k • written 18 days ago by
nhaus
▴ 30
0
votes
0
replies
97
views
ggtree tip label position (depth)
ggtree
18 days ago • updated 17 days ago
Roope
• 0
1
vote
6
replies
464
views
GSVA on separate healthy and disease datasets
GSVA
updated 17 days ago by
James W. MacDonald
65k • written 18 days ago by
Lucy
▴ 60
2
votes
6
replies
358
views
How to make boxplot with pairwise and overall p value from Limma
t.test
boxplot
limma
anova
19 days ago
Chris
• 0
45,581 results • Page
2 of 912
Recent ...
Replies
Comment: Why p value inconsistent when using different number of pathway score?
by
Chris
• 0
Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data
by
Leo Lahti
▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano
by
pl23
• 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions
by
Michael Love
41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
by
ussarizona
▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
Awards
• All
Popular Question
to
Leo Lahti
▴ 40
Scholar
to
James W. MacDonald
65k
Popular Question
to
shepherl
3.8k
Scholar
to
Michael Love
41k
Supporter
to
JKim
• 0
Locations
• All
The city by the bay,
40 minutes ago
Ireland,
51 minutes ago
United States,
1 hour ago
United States,
1 hour ago
France,
1 hour ago
Traffic: 502 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