Showing : gostats • reset
0
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0
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335
views
Downstream analysis of DEG for non-model organisms.
axolotl KEGG GOstats clusterProfiler
9 months ago georgii.vdovin • 0
0
votes
0
replies
376
views
plotGOTermGraph connects all subtrees to the root node
GO.db GOstats
10 months ago RuBBiT0 ▴ 10
1
vote
9
replies
1.2k
views
GOstats - subsetting termGraphs with terms from the html report and missing nodes
GOstats
updated 13 months ago by • 0 • written 13 months ago by ▴ 350
2
votes
3
replies
1.6k
views
GOstats - are significantly enriched GO terms with a small "size" meaningful?
GOstats GO RNASeq
updated 2.4 years ago by 65k • written 2.4 years ago by ▴ 20
1
vote
2
replies
888
views
Getting list of genes enriched in each of Biological process terms
GOstats Go.db GeneOntology
3.1 years ago MOHAMMAD • 0
0
votes
0
replies
747
views
Functional enrichment analysis for genomic data from non-model organism annotated based on model organism
DOSE hypeR goTools GOstats topGO
3.4 years ago Madza Farias-Virgens • 0
0
votes
1
reply
788
views
incorrect number of dimensions in probeSetSummary function from GOstats
GOstats GO R
updated 3.9 years ago by 65k • written 3.9 years ago by ▴ 10
3
votes
4
replies
1.4k
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3 Cytoscape Rgraphviz GOstats
4.9 years ago Matthew Thornton ▴ 350
0
votes
5
replies
1.5k
views
hyperGTest not working on custom annotation package
GOstats AnnotationDbi GO.db
updated 5.1 years ago by 65k • written 5.1 years ago by • 0
2
votes
2
replies
1.3k
views
GO.db source obo file?
gene ontology gostats go.db ontologies
updated 5.7 years ago by 25k • written 5.7 years ago by • 0
0
votes
2
replies
1.1k
views
comparing two GOstats result lists
gostats statistics
updated 5.9 years ago by 65k • written 5.9 years ago by ▴ 20
3
votes
10
replies
1.2k
views
GO Stats results contain GO terms NOT present in the gene universe
gostats
updated 5.9 years ago by • 0 • written 5.9 years ago by ▴ 20
0
votes
1
reply
1.8k
views
how to run GO enrichment analysis for non-model organisms (errors when using hyperGTest)
gostats GO non_model
6.0 years ago zhaoran1124 • 0
0
votes
0
replies
1.1k
views
GOstats install Error : .onLoad failed in loadNamespace() for 'GO.db'
gostats go.db
6.1 years ago crafy • 0
0
votes
0
replies
1.1k
views
invalid names for slots of class GOHyperGResult
gostats
6.4 years ago laianavarromartin ▴ 20
0
votes
6
replies
1.6k
views
GO-terms delivered by GOstats hyperGTest() do not exist in my universe
GOstats
6.4 years ago martis.mihaela • 0
0
votes
1
reply
1.2k
views
Add gene information to most expressed gene list (packages lumi and GOstats)
annotation lumi GOstats
updated 6.6 years ago by 65k • written 6.6 years ago by • 0
0
votes
0
replies
966
views
Question: Enrichment heatmap - GOstats package of R
Gostats p-value
6.8 years ago salamandra ▴ 20
0
votes
1
reply
921
views
GOstats R Package
gostats
6.8 years ago arpa530 • 0
0
votes
0
replies
1.2k
views
Pathway analysis for diffrential express gene
pathways gage annotation gostats
7.1 years ago avinash gupta ▴ 130
4
votes
2
replies
1.5k
views
Why do I get different GO term sizes using the same gene universe for 2 analyses with GOstats?
gostats hypergeometric test
updated 7.2 years ago by 65k • written 7.2 years ago by ▴ 10
6
votes
6
replies
3.4k
views
Error in .checkKeys(value, Lkeys(x), x@ifnotfound)
Gostats go term annotation drosophila melanogaster error
updated 7.2 years ago by ▴ 10 • written 7.9 years ago by ▴ 300
2
votes
9
replies
3.9k
views
Unable to calculate in parallel what can be calculated on a for loop
biocparallel foreach org.hs.eg.db gostats
updated 7.4 years ago by 25k • written 7.5 years ago by ▴ 730
1
vote
2
replies
1.4k
views
Gene Ontology Overrepresentation Analysis with a custom level of Abstraction of GO Terminology
gene ontology GO overrepresentation analysis missmethyl gostats
updated 7.7 years ago by 65k • written 7.7 years ago by • 0
2
votes
1
reply
1.2k
views
Is possible to use an organism annotation package in simLL function?
gostats
updated 7.7 years ago by 65k • written 7.7 years ago by ▴ 730
0
votes
4
replies
1.4k
views
Error in GOFrame due to NA for unsupported organism (Gene Ontology)
reportingtools annotationhub gostats
updated 7.8 years ago by 65k • written 7.8 years ago by ▴ 20
0
votes
1
reply
3.5k
views
GOstats - Error in order(pvals) : argument 1 is not a vector
bioconductor r gostats
updated 7.8 years ago by 65k • written 7.8 years ago by • 0
0
votes
2
replies
1.2k
views
broken link to www.godatabase.org in results generated by htmlReport() from GOstats package ?
GOstats www.godatabase.org htmlReport
7.8 years ago c.kohler • 0
0
votes
3
replies
1.9k
views
Can not install 'affyio' with compiler icc on redhat linux ES5
GOstats GOstats
updated 7.8 years ago by ▴ 10 • written 13.4 years ago by ▴ 10
0
votes
1
reply
1.2k
views
Problem with GOstats - invalid names for slots of class GOHyperGResult
GOstat GOstats
7.9 years ago ccanchaya • 0
0
votes
2
replies
2.9k
views
Odd Odds Ratio in GOstats package
GO GOstats GO GOstats
updated 8.0 years ago by • 0 • written 10.0 years ago by ▴ 10
0
votes
0
replies
1.3k
views
Annotation, Over representation testing and Pathway analysis using Ensembl gene IDs
rnaseq annotation gostats org.Bt.eg.db
8.0 years ago mrodrigues.fernanda ▴ 10
13
votes
2
replies
4.6k
views
Best method/package for Gene Set Enrichment Analysis in microarrays?
GSEA goseq topgo gega gostats
updated 8.4 years ago by ★ 3.2k • written 8.4 years ago by ▴ 40
1
vote
0
replies
1.3k
views
enrichment analysis for gene pairs
go gostats category gsea
8.5 years ago Hector Corrada Bravo ▴ 60
1
vote
1
reply
1.3k
views
GoStats Hit Counter for website
gostats gostat
updated 8.5 years ago by ★ 8.2k • written 8.5 years ago by • 0
0
votes
1
reply
1.3k
views
GOstats and termGraph - Getting all of the plots out of the list
gostats rgraphviz
updated 8.7 years ago by ★ 6.8k • written 8.7 years ago by • 0
0
votes
0
replies
1.3k
views
hyperGTest for MSigDB categories
category gostats msigdb hypergeometric test
8.7 years ago petyuk ▴ 70
0
votes
2
replies
1.1k
views
Conditional test for goseq?
goseq gostats
updated 8.7 years ago by 50k • written 8.7 years ago by ★ 2.0k
0
votes
8
replies
2.0k
views
PFAM Enrichment in GOstats
PFAM Category GOstats
updated 8.9 years ago by ★ 1.2k • written 8.9 years ago by ▴ 930
1
vote
2
replies
1.3k
views
Mysterious warning message: "...in .local... ignoring 'pos' argument
warnings gostats
updated 9.0 years ago by 65k • written 9.0 years ago by • 0
0
votes
1
reply
961
views
Alien GO result from GOstats
gostats
9.0 years ago Yue Zhao • 0
0
votes
3
replies
1.5k
views
Genes corresponding to GO terms for unsupported organsims
gostats unsupported organisms
updated 9.1 years ago by ★ 7.2k • written 9.1 years ago by ▴ 270
1
vote
10
replies
2.3k
views
Filtering genes for GOstats
gostats
9.2 years ago nonCodingGene ▴ 10
0
votes
1
reply
1.7k
views
Customized GO enrichment with GOstat
GOstats
updated 9.2 years ago by 65k • written 9.2 years ago by • 0
0
votes
6
replies
2.2k
views
hyperGTest interpretation of 'under' and finding all Entrez associated with a GO term
Annotation GO gostats
updated 9.4 years ago by 50k • written 11.4 years ago by ▴ 70
0
votes
2
replies
1.7k
views
Incomplete gene IDs in KEGG pathway testing
gostats kegg
updated 9.4 years ago by 65k • written 9.4 years ago by • 0
3
votes
3
replies
2.2k
views
GOstats "count" question
gostats
updated 9.5 years ago by 65k • written 9.5 years ago by ▴ 10
4
votes
3
replies
2.8k
views
Select the annotation level during GO enrichment
topgo gostats go
updated 9.6 years ago by 65k • written 9.6 years ago by ▴ 80
0
votes
0
replies
2.3k
views
Gostats Hypergeometric tests for non model organisms Kegg pathway
Pathways GO Organism GOstats
9.6 years ago Luo Weijun ★ 1.6k
0
votes
0
replies
1.7k
views
Gostats Hypergeometric tests for non model organisms Kegg pathway
Pathways GO Organism GOstats
9.6 years ago Guest User ★ 13k
50 results • Page 1 of 1
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Answer: OrgDb for maize by Guido Hooiveld ★ 3.9k
I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …
Comment: Theoretical WGCNA Question by Garrett • 0
Thanks Peter!
Comment: FGSEA pre-ranked input in increasing order or decreasing by sropri • 0
Thank you!
Comment: FGSEA pre-ranked input in increasing order or decreasing by alserg ▴ 240
They are reorder in the decreasing order.
Comment: significant difference of p-values with dream() after updating VariancePartition by Le • 0
Thanks for your reply @gabrielhoffman ! I've been trying to isolate the changes, and v1.32.5 had the same results as v1.33.1 while v1.30.0…
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Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Comment: Error in champ.load(): The following specified files do not exist
Answer: Error in read.metharray(basenames = files, extended = extended, verbose = verbos
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