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questions
0
votes
0
replies
212
views
Gene-pathway network with FDR or p value
clusterprofiler
7 weeks ago by
Chris
▴ 340
11
votes
11
replies
757
views
Can't increase font size for x axis
R
ggplot2
8 weeks ago by
Chris
▴ 340
0
votes
2
replies
338
views
Help with cnet plot for customize pathway from MSigDb
cnet
9 weeks ago by
Chris
▴ 340
5
votes
5
replies
685
views
Error in dimnames(x) <- dn : length of 'dimnames' [2] not equal to array extent
EGSEA
4 months ago by
Chris
▴ 340
0
votes
0
replies
222
views
Empty table plot using plotGseaTable()
FGSEA
4 months ago by
Chris
▴ 340
0
votes
0
replies
221
views
Filter low express genes in microarray data
microarray
4 months ago by
Chris
▴ 340
1
vote
1
reply
566
views
Difference when using difference number of pathways score to compare between 3 groups
GSVA
Limma
updated 4 months ago by
Gordon Smyth
★ 7.3k • written 5 months ago by
Chris
▴ 340
0
votes
0
replies
207
views
How to annotate pairwise p value from limma (3 groups) in a combine multiple boxplot?
limma
boxplot
5 months ago by
Chris
▴ 340
3
votes
3
replies
510
views
Visualize pathways from MSigDB
MSigdb
5 months ago by
Chris
▴ 340
0
votes
0
replies
185
views
How to check if a few pathways have relationship?
MSigdb
REACTOME
KEGG
5 months ago by
Chris
▴ 340
0
votes
0
replies
185
views
Number of pathway result from GSVA
GSVA
5 months ago by
Chris
▴ 340
1
vote
3
replies
559
views
Limma compare between 3 conditions vs 2 conditions
Limma
updated 5 months ago by
Gordon Smyth
★ 7.3k • written 5 months ago by
Chris
▴ 340
1
vote
1
reply
681
views
Help with SCENIC+
scenic-plus
updated 5 months ago by
corbettberry
▴ 10 • written 10 months ago by
Chris
▴ 340
4
votes
5
replies
696
views
Differential express genes in imbalance groups
Limma
6 months ago by
Chris
▴ 340
1
vote
2
replies
370
views
Upset plot
upsetplot
6 months ago by
Chris
▴ 340
0
votes
2
replies
379
views
How to get genes in a gene set in msigdb?
msigdb
5 months ago by
Chris
▴ 340
0
votes
0
replies
205
views
Function normalize raw microarray data for GSVA
gsva
6 months ago by
Chris
▴ 340
0
votes
0
replies
479
views
Error in validObject(.Object) : invalid class “ExpressionSet” object: sampleNames differ between assayData and phenoData
GSVA
6 months ago by
Chris
▴ 340
5
votes
4
replies
597
views
Differential expression at pathway level
GSVA
updated 7 months ago by
AquaDeath
▴ 80 • written 7 months ago by
Chris
▴ 340
7
votes
12
replies
2.3k
views
Integrated genes from bulk RNA seq and ATAC seq
ATAC-seq
bulk-RNA
updated 7 months ago by
Ram
44k • written 16 months ago by
Chris
▴ 340
4
votes
11
replies
1.0k
views
Remove X in row name with only number
GSVA
updated 7 months ago by
Ram
44k • written 7 months ago by
Chris
▴ 340
12
votes
20
replies
1.8k
views
Help with gatk BaseRecalibrator
GATK
variant-calling
updated 9 months ago by
Ram
44k • written 9 months ago by
Chris
▴ 340
6
votes
4
replies
2.9k
views
Methods to integrate ATAC-seq and RNA-seq
RNA-seq
ATAC-seq
updated 9 months ago by
Tao Zhu
▴ 10 • written 14 months ago by
Chris
▴ 340
2
votes
2
replies
581
views
Help with gatk CreateSequenceDictionary
GATK
updated 9 months ago by
GenoMax
145k • written 9 months ago by
Chris
▴ 340
2
votes
2
replies
1.4k
views
Help with scvelo
scvelo
updated 9 months ago by
Prakki Rama
★ 2.7k • written 11 months ago by
Chris
▴ 340
0
votes
0
replies
670
views
Help with cellchat error
cellchat
updated 10 months ago by
Ram
44k • written 10 months ago by
Chris
▴ 340
6
votes
10
replies
1.9k
views
Visualization of RNA-seq gene expression only one gene of interest between 2 conditions
RNA-seq
11 months ago by
Chris
▴ 340
1
vote
0
replies
302
views
Help with Enrichr clustergram
enrichr
11 months ago by
Chris
▴ 340
5
votes
7
replies
1.0k
views
Novel disease mechanism papers from RNA-seq
RNA-seq
updated 11 months ago by
GenoMax
145k • written 11 months ago by
Chris
▴ 340
1
vote
7
replies
1.2k
views
Ribosomal cluster
seurat
single-cell
11 months ago by
Chris
▴ 340
2
votes
4
replies
857
views
Can't find a gene in single cell
single-cell
11 months ago by
Chris
▴ 340
0
votes
0
replies
389
views
How to get RPKM from count matrix
RPKM
11 months ago by
Chris
▴ 340
3
votes
2
replies
986
views
Scvelo vs Monocle3
monocle3
scvelo
11 months ago by
Chris
▴ 340
1
vote
1
reply
631
views
Help with error velocyto
velocyto
11 months ago by
Chris
▴ 340
4
votes
10
replies
1.7k
views
Help with error running velocyto
velocyto
11 months ago by
Chris
▴ 340
3
votes
5
replies
1.6k
views
How to get the gft file to run velocyto for velocity analysis?
velocity
updated 8 months ago by
e.r.zakiev
▴ 230 • written 11 months ago by
Chris
▴ 340
3
votes
4
replies
1.1k
views
Network analysis with cytoscape
RNA-seq
cytoscape
11 months ago by
Chris
▴ 340
14
votes
18
replies
3.1k
views
Clustering in single cell
seurat
single-cell
updated 11 months ago by
e.r.zakiev
▴ 230 • written 11 months ago by
Chris
▴ 340
2
votes
4
replies
934
views
Which function is best for pathway analysis?
pathway
11 months ago by
Chris
▴ 340
7
votes
7
replies
1.2k
views
Filter human transcription factors
transcription-factor
RNA-seq
updated 11 months ago by
jared.andrews07
★ 17k • written 11 months ago by
Chris
▴ 340
10
votes
8
replies
1.3k
views
Adding a control sample to bulk RNA-seq
RNA-seq
12 months ago by
Chris
▴ 340
6
votes
8
replies
1.1k
views
Find potential important genes from bulk-RNA seq experiment
RNA-seq
12 months ago by
Chris
▴ 340
2
votes
4
replies
811
views
Help with celltype annotation
seurat
single-cell
12 months ago by
Chris
▴ 340
0
votes
7
replies
1.5k
views
How to get top 10 genes expressed in a cluster ( for cell type identification)?
seurat
updated 11 months ago by
yhdist
▴ 70 • written 12 months ago by
Chris
▴ 340
0
votes
0
replies
375
views
Help with Mofa2
multiome
mofa2
updated 12 months ago by
Ram
44k • written 12 months ago by
Chris
▴ 340
1
vote
0
replies
360
views
Genes in open chromatin region
ATAC-seq
DiffBind
12 months ago by
Chris
▴ 340
0
votes
0
replies
458
views
R crash when running leiden algorithm
seurat
updated 12 months ago by
Ram
44k • written 12 months ago by
Chris
▴ 340
6
votes
6
replies
2.8k
views
Help with error scanpy
scanpy
updated 7 months ago by
sredemption
• 0 • written 12 months ago by
Chris
▴ 340
0
votes
0
replies
375
views
Help with scvi error
scvi
updated 12 months ago by
Ram
44k • written 12 months ago by
Chris
▴ 340
0
votes
0
replies
344
views
Help with single cell annotation
single-cell
updated 12 months ago by
Ram
44k • written 12 months ago by
Chris
▴ 340
144 results • Page
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