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2
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166
views
geneList error in clusterprofiler
clusterProfiler
GeneSetEnrichment
4 weeks ago
Ana
• 0
0
votes
1
reply
135
views
what is the sampleFiles
chipseq
updated 4 weeks ago by
James W. MacDonald
65k • written 4 weeks ago by
zhulin
• 0
0
votes
3
replies
226
views
Interaction Terms in DESeq2 - Shrinkage
DESeq2
updated 4 weeks ago by
Michael Love
42k • written 4 weeks ago by
andrebolerbarros
▴ 20
0
votes
5
replies
1.7k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 13 months ago by
mauricio.microbiol
• 0
1
vote
1
reply
206
views
Differentially expressed genes in monocle pseudotime
monocle
updated 4 weeks ago by
Gordon Smyth
50k • written 4 weeks ago by
kthapa
• 0
2
votes
2
replies
190
views
[DiffBind] Obtaining normalization factors
DiffBind
4 weeks ago
Henry
▴ 10
2
votes
3
replies
344
views
ComplexHeatmap: add pch to rowAnnotation when the input is a data frame with variable number of continuous columns
ComplexHeatmap
4 weeks ago
daniel.carbajo
• 0
0
votes
1
reply
164
views
The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 4 weeks ago by
kamryncole1963
• 0 • written 5 weeks ago by
Sara
• 0
0
votes
0
replies
105
views
Diffbind Error in socketConnection
DiffBind
Errorinsocketconnection
SpikeIn
4 weeks ago
Virangika
• 0
0
votes
0
replies
82
views
[ChIPseeker] Unable to perform gene ontology analysis
ChIPseeker
4 weeks ago
Henry
▴ 10
1
vote
2
replies
695
views
GSVA error
GSVA
4 weeks ago
Alex
• 0
0
votes
1
reply
144
views
Deseq2 Rlog transformation
DESeq2
updated 4 weeks ago by
ATpoint
★ 4.1k • written 4 weeks ago by
Sahar
• 0
1
vote
3
replies
368
views
Why is my gene not significantly differentially expressed?
limmaGUI
edgeR
limma
updated 4 weeks ago by
Gordon Smyth
50k • written 5 weeks ago by
Simran
• 0
2
votes
2
replies
191
views
ComplexHeatmap: change the names of a HeatmapAnnotation object
ComplexHeatmap
4 weeks ago
daniel.carbajo
• 0
0
votes
1
reply
194
views
compareCluster dotplot: how to modify the genesets order
DOSE
enrichplot
clusterProfiler
updated 4 weeks ago by
Guido Hooiveld
★ 4.0k • written 5 weeks ago by
Lucie
• 0
6
votes
10
replies
2.2k
views
overlapsAny for elements in GRangesList
granges
grangeslist
overlapsAny
updated 4 weeks ago by
Samuel Ahuno
• 0 • written 8.0 years ago by
maltethodberg
▴ 180
1
vote
2
replies
211
views
Design Matrix within group comparison more than two groups
DESeq2
4 weeks ago
hemantcnaik
• 0
0
votes
1
reply
1.4k
views
Tutorial:
Online workshop "Working with ChatGPT in R" 2023-03-09
chatgpt
programming
updated 4 weeks ago by
gptnederlands.nl
• 0 • written 14 months ago by
Wolfgang Huber
★ 13k
5
votes
6
replies
456
views
Not fully paired differential gene expression analysis
edgeR
DifferentialExpression
updated 4 weeks ago by
ATpoint
★ 4.1k • written 5 weeks ago by
nhaus
▴ 30
2
votes
2
replies
212
views
How many of my genes from my gene list are in each KEGG pathway?
Pathways
clusterProfiler
gseKEGG
KEGG
4 weeks ago
julia_mcdonough
• 0
3
votes
1
reply
765
views
News:
[Pre-print] Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex
biorxiv
spatialLIBD
News
written 4.2 years ago by
Leonardo Collado Torres
★ 1.0k
2
votes
2
replies
414
views
[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind
Normalization
5 weeks ago • updated 4 weeks ago
Henry
▴ 10
0
votes
1
reply
149
views
Bioinformatics student
Des
DESeq2
updated 4 weeks ago by
hemantcnaik
• 0 • written 4 weeks ago by
Sahar
• 0
0
votes
0
replies
99
views
News:
Important Release 3.18 Freeze Announcment
Release
release
Bioconductor
Bioconducto
4 weeks ago
shepherl
3.9k
0
votes
0
replies
102
views
Cannot use `readVcf()` on a file created with `writeVcf()`
VariantAnnotation
5 weeks ago
Stevie Pederson
• 0
0
votes
1
reply
194
views
DESeq2 gives an error and R crashes
DESeq2
5 weeks ago
Shefali
• 0
0
votes
4
replies
241
views
Storing directories inside an ExperimentHub package?
ExperimentHub
5 weeks ago
Tim Barry
• 0
8
votes
23
replies
1.0k
views
Convert Seurat Object to Summarised Experiment or ExpressionSet
SummarizedExperiment
ExpressionSet
updated 5 weeks ago by
Robert Castelo
★ 3.3k • written 5 weeks ago by
Bine
▴ 40
3
votes
6
replies
304
views
Surrogate variable analysis for paired RNA seq experiment
RUVSeq
sva
5 weeks ago
nhaus
▴ 30
0
votes
0
replies
116
views
News:
Course Manipulation of NGS Data for Genomic and Population Genetics Analyses
sequencing
Sequencing
SequencingData
5 weeks ago
communication
• 0
0
votes
6
replies
362
views
unable to access Annotationhub latest record
DNAMethylation
AnnotationHub
EPICv2manifest
annotation
updated 5 weeks ago by
Tim Peters
▴ 180 • written 6 weeks ago by
s.malik
• 0
0
votes
0
replies
149
views
LearnTaxa with custom Silva
DECIPHER
LearnTaxa
5 weeks ago
Eryn
• 0
0
votes
0
replies
96
views
queryDGIdb lexical error for some genes
lexicalerror
rDGIdb
DGIdb
json
5 weeks ago
Dennis
• 0
1
vote
6
replies
522
views
GSVA on separate healthy and disease datasets
GSVA
updated 5 weeks ago by
James W. MacDonald
65k • written 5 weeks ago by
Lucy
▴ 60
0
votes
1
reply
359
views
Gene names from Matrix
BioCor
StarBioTrek
MatrixGenerics
updated 5 weeks ago by
Lluís Revilla Sancho
▴ 730 • written 7 months ago by
karmasstark
• 0
0
votes
1
reply
154
views
Can you find the correct transcript in scRNA seq data
scRNAseq
RNAseq
updated 5 weeks ago by
ATpoint
★ 4.1k • written 5 weeks ago by
Merav
• 0
0
votes
0
replies
127
views
ggtree tip label position (depth)
ggtree
5 weeks ago
Roope
• 0
0
votes
2
replies
243
views
Interaction term vs grouping variable design considerations
DESeq2
DifferentialExpression
updated 5 weeks ago by
Michael Love
42k • written 5 weeks ago by
nhaus
▴ 30
0
votes
1
reply
186
views
IgG control in RIP-seq with Deseq2
DESeq2
RIP-seq
updated 5 weeks ago by
Michael Love
42k • written 5 weeks ago by
Adelaide
• 0
0
votes
2
replies
265
views
Regressing out batch effects
DESeq2
updated 5 weeks ago by
Michael Love
42k • written 6 weeks ago by
kys91240
• 0
0
votes
1
reply
162
views
BAM write error in HTSeqGenie
HTSeqGenie
BAM
updated 5 weeks ago by
James W. MacDonald
65k • written 5 weeks ago by
zh9118
• 0
1
vote
10
replies
471
views
Obtaining pheno data from CEL files
GEO
affy
6 weeks ago • updated 5 weeks ago
Kurtis
• 0
0
votes
1
reply
519
views
Cibersort phenotype file
cibersort
deconvR
immune
updated 5 weeks ago by
ivorychan7777
• 0 • written 15 months ago by
609b0d25
• 0
2
votes
6
replies
452
views
How to make boxplot with pairwise and overall p value from Limma
t.test
boxplot
limma
anova
5 weeks ago
Chris
▴ 10
0
votes
1
reply
187
views
How can I create a GO plot with ggpubr and clusterProfiler libraries (begginer)
clusterProfiler
ggpubr
updated 5 weeks ago by
James W. MacDonald
65k • written 5 weeks ago by
BCS12
• 0
0
votes
0
replies
173
views
Job:
PhD-position in bioinformatics / computational biology
Mergeomics
Epigenome
Evolution
NGS
Aging
5 weeks ago
arne.sahm
• 0
0
votes
0
replies
113
views
News:
Call for proposals: European CarpentryConnect - 12-14 November 2024, at EMBL Heidelberg
carpentry
conference
5 weeks ago
Wolfgang Huber
★ 13k
0
votes
4
replies
329
views
Help with design.matrix
limma
5 weeks ago
andrea.rodriguez-martinez13
• 0
0
votes
1
reply
185
views
Limma design matrix only showing 3/4 treatments?
limma
designmatrix
updated 5 weeks ago by
Gordon Smyth
50k • written 5 weeks ago by
avery
• 0
1
vote
3
replies
278
views
Lib sizes in the DGE object are different from original lib sizes
edgeR
DifferentialExpression
updated 5 weeks ago by
James W. MacDonald
65k • written 5 weeks ago by
Shaimaa Gamal
• 0
45,665 results • Page
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Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db")
by
Patadù
▴ 10
Hi @marcelramos Thanks for the clarification. Yes, I have installed `org.Vdahlaie.eg.db` using the code you and Guido suggested and now i…
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Dear Daniele, for which Ensembl release would you need the data? the most recent is 112, but if you used a different version before it wou…
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Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
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Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
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