Showing : SPIA • reset
1
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2
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218
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Error creating SPIA data for KEGG Orthology (KO) Database KEGG xml files
SPIA
6 weeks ago Benji Bromberg ▴ 20
0
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0
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643
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plotting Signalling Pathways using SPIA
SPIA functional-analysis Pathways KEGG
3.7 years ago Assa Yeroslaviz ★ 1.5k
0
votes
1
reply
747
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alternative package to SPIA
SPIA pathway enrichment analysis overrepresentation
4.7 years ago asifgeb • 0
1
vote
2
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1.8k
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Question on graphite/SPIA; extracting DE gene list
graphite spia runSPIA
updated 4.9 years ago by 0 • written 8.7 years ago by • 0
0
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0
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839
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SPIA function error in ToPASeq
ToPASeq SPIA pathway analysis R
5.7 years ago fawazfebin ▴ 60
0
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0
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1.1k
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a possible bug in spia function
SPIA
6.3 years ago slava.ilyntskyy • 0
0
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0
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954
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SPIA Package : Activated and Inhibited
SPIA R pathway analysis
6.4 years ago khhgng • 0
5
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2
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1.4k
views
SPIA::spia function output
SPIA
updated 6.9 years ago by ▴ 570 • written 6.9 years ago by ▴ 10
0
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1
reply
1.0k
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SPIA plotP giving error
SPIA plotP threshold
7.0 years ago docpriya21 • 0
0
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0
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905
views
SPIA error in DE-Colorectal
SPIA
7.4 years ago saamar.rajput • 0
1
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2
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2.3k
views
(Gene-set)Pathway analysis based on network/pathway topology in R
SPIA functional enrichment pathway topology pathway analysis bioconductor
8.4 years ago svlachavas ▴ 820
0
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1
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1.9k
views
SPIA error - names of de are not in reference array
SPIA named vectors pathway analysis
updated 16 months ago by • 0 • written 9.1 years ago by • 0
0
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0
replies
957
views
R: Re: Deseq2 and differentia expression
SPIA SPIA
9.4 years ago Simon Anders ★ 3.7k
0
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1
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1.2k
views
SPIA
Pathways SPIA Pathways SPIA
updated 9.7 years ago by ▴ 570 • written 9.7 years ago by ★ 12k
0
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1
reply
1.6k
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pathway analysis by SPIA using SPIA package vs graphite package
Pathways SPIA cycle graphite Pathways SPIA cycle graphite
9.9 years ago array chip ▴ 420
0
votes
1
reply
1.3k
views
makeSPIAdata
SPIA SPIA
updated 9.9 years ago by ▴ 570 • written 9.9 years ago by ▴ 10
0
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1
reply
2.4k
views
SPIA error - Error in density.default(pfstmp, bw = sd(pfstmp)/4) : \'bw\' is not positive.
SPIA cycle SPIA cycle
updated 10.0 years ago by ▴ 570 • written 10.0 years ago by ★ 12k
0
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0
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1.1k
views
Background for test in SPIA package.
Annotation Pathways SPIA Annotation Pathways SPIA
10.7 years ago Ian Sudbery ▴ 30
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0
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1.6k
views
SPIA algorithm organisms not included already in the SPIA package
Organism SPIA goseq KEGGREST Organism SPIA goseq KEGGREST
10.8 years ago Tarca, Adi ▴ 570
0
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0
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1.3k
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changes in SPIA package: using updated KEGG pathway data
Organism SPIA Organism SPIA
10.8 years ago Tarca, Adi ▴ 570
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0
replies
1.1k
views
Bioconductor Digest, Vol 119, Issue 5: Overrepresentation pathway with KEGGPROFILE and SPIA
Pathways SPIA KEGGprofile Pathways SPIA KEGGprofile
10.9 years ago Tarca, Adi ▴ 570
0
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0
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946
views
Overrepresentation pathway with KEGGPROFILE and SPIA
SPIA SPIA
10.9 years ago gregory voisin ▴ 430
0
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3
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2.5k
views
Kegg pathways overlay with log fold change values
Pathways limma SPIA Pathways limma SPIA
updated 11.5 years ago by ▴ 120 • written 11.5 years ago by ▴ 50
0
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2
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2.3k
views
Problem in SPIA: de must be a vector of log2 fold changes. The names of de should be included in the refference array!
Organism limma SPIA Organism limma SPIA
updated 11.9 years ago by ▴ 570 • written 11.9 years ago by ▴ 100
0
votes
0
replies
1.1k
views
Bioconductor resources for immunology
Pathways GO SPIA Pathways GO SPIA
12.0 years ago January Weiner ▴ 240
0
votes
0
replies
1.3k
views
SPIA package
Pathways Organism SPIA Pathways Organism SPIA
12.0 years ago Tarca, Adi ▴ 570
0
votes
0
replies
1.1k
views
question for SPIA package
Pathways SPIA Pathways SPIA
12.0 years ago Jing Huang ▴ 380
0
votes
2
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1.2k
views
SPIA package
PROcess SPIA PROcess SPIA
12.2 years ago Jing Huang ▴ 380
0
votes
0
replies
970
views
question for you on SPIA package
Pathways Organism SPIA Pathways Organism SPIA
12.2 years ago Tarca, Adi ▴ 570
0
votes
2
replies
1.3k
views
question on SPIA pavkage application
Organism SPIA Organism SPIA
updated 12.3 years ago by ▴ 150 • written 12.3 years ago by ▴ 380
0
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1
reply
1.0k
views
a question on SPIA package
Microarray SPIA Microarray SPIA
updated 12.3 years ago by ▴ 650 • written 12.3 years ago by ▴ 380
0
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2
replies
1.5k
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organism abbreviations (SPIA package)
Microarray Organism SPIA Microarray Organism SPIA
updated 12.3 years ago by ▴ 340 • written 12.3 years ago by ▴ 380
0
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1
reply
1.3k
views
Which resources for pathway analysis?
Pathways Network SPIA DEGraph Pathways Network SPIA DEGraph
updated 12.8 years ago by ▴ 370 • written 12.8 years ago by ▴ 100
0
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1
reply
1.1k
views
Which resources for pathway analysis?
Pathways SPIA Pathways SPIA
updated 12.8 years ago by ▴ 300 • written 12.8 years ago by ▴ 370
0
votes
1
reply
1.1k
views
SPIA package with updated KEGG pathways
Pathways SPIA Pathways SPIA
updated 13.0 years ago by ★ 7.2k • written 13.0 years ago by ▴ 20
0
votes
0
replies
886
views
Bioconductor Digest, Vol 94, Issue 10
Pathways SPIA Pathways SPIA
13.0 years ago Tarca, Adi ▴ 570
0
votes
0
replies
1.2k
views
Bioconductor Digest, Vol 93, Issue 26: How to create KEGG's pathway data for SPIA?
Organism KEGGgraph SPIA Organism KEGGgraph SPIA
13.0 years ago Tarca, Adi ▴ 570
0
votes
0
replies
891
views
How to create KEGG's pathway data for SPIA?
SPIA SPIA
13.0 years ago Lourdes Peña Castillo ▴ 140
0
votes
4
replies
1.2k
views
SPIA - changes between 1.4.0 and 1.60.
Pathways SPIA Pathways SPIA
updated 13.2 years ago by ▴ 20 • written 13.2 years ago by ▴ 480
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0
replies
990
views
SPIA with Mouse Data
Genetics Network Organism SPIA Genetics Network Organism SPIA
13.3 years ago Will Bush ▴ 10
0
votes
0
replies
922
views
SPIA package problem
Microarray GO Cancer Organism hgu95av2 mgug4122a SPIA Microarray GO Cancer Organism
13.5 years ago January Weiner ▴ 370
0
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0
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866
views
help with SPIA package
Organism limma SPIA Organism limma SPIA
13.5 years ago Barbara Bo-Ju Shih ▴ 40
0
votes
0
replies
789
views
MArray into data.frame for SPIA package
limma marray SPIA limma marray SPIA
13.7 years ago Gordon Smyth 48k
0
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1
reply
1.1k
views
SPIA package
graph SPIA graph SPIA
updated 13.7 years ago by ★ 7.4k • written 13.7 years ago by ▴ 200
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0
replies
1.3k
views
SPIA: inferring inhibited pathways from up-regulated genes?
Pathways SPIA Pathways SPIA
14.0 years ago Tarca, Adi ▴ 570
0
votes
0
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1.1k
views
SPIA, hacked to run with only selected pathways
SystemsBiology Pathways Cancer SPIA SystemsBiology Pathways Cancer SPIA
14.0 years ago Tarca, Adi ▴ 570
46 results • Page 1 of 1
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Comment: Deleted:No significant MVPs with a BH adjusted P-value below 0.05 by Basti ▴ 740
The image is blurred, but you need to follow ATpoint advice and restart the entire analysis using a clean environment.
Comment: Deleted:No significant MVPs with a BH adjusted P-value below 0.05 by 486342583 • 0
This is my running code myDMP <- champ.DMP(beta = myNormA, pheno = myLoad$pd$Sample_Group, …
Comment: Deleted:No significant MVPs with a BH adjusted P-value below 0.05 by 486342583 • 0
![enter image description here][1] Thank you for your reply. I am a beginner. What I meant was that I could have obtained this image yester…
Comment: Deleted:No significant MVPs with a BH adjusted P-value below 0.05 by ATpoint ★ 3.6k
I don't follow what you mean by "Normal" but in general, when you run code and it returns different results indicates that you might have o…
Comment: Deleted:No significant MVPs with a BH adjusted P-value below 0.05 by 486342583 • 0
Thank you for your reply, but for some reason, when I ran this code yesterday, it was normal
Votes
A: DSS understanding delta option and posterior probability
Comment: Ensembl down???
Answer: How should I run ssGSEA Hallmark Enrichment Analysis?
Answer: tximport: Error in is(txi, "list") : argument "txi" is missing, with no default
Comment: Problem loading HDF5Array in R 4.3.2
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