Showing : Gostats • reset
0
votes
2
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792
views
GOstats kegg analysis in wheat - help - none of the objects in the first column are legitimate kegg ids (but they are)
AnnotationDbi GOstats
3 months ago GV Yoshikawa • 0
0
votes
0
replies
591
views
Downstream analysis of DEG for non-model organisms.
axolotl KEGG GOstats clusterProfiler
19 months ago georgii.vdovin • 0
0
votes
0
replies
649
views
plotGOTermGraph connects all subtrees to the root node
GO.db GOstats
21 months ago RuBBiT0 ▴ 10
1
vote
9
replies
1.7k
views
GOstats - subsetting termGraphs with terms from the html report and missing nodes
GOstats
updated 24 months ago by • 0 • written 2.0 years ago by ▴ 380
2
votes
3
replies
2.2k
views
GOstats - are significantly enriched GO terms with a small "size" meaningful?
GOstats GO RNASeq
updated 3.3 years ago by 68k • written 3.3 years ago by ▴ 20
1
vote
2
replies
1.1k
views
Getting list of genes enriched in each of Biological process terms
GOstats Go.db GeneOntology
4.0 years ago MOHAMMAD • 0
0
votes
0
replies
965
views
Functional enrichment analysis for genomic data from non-model organism annotated based on model organism
DOSE hypeR goTools GOstats topGO
4.3 years ago Madza Farias-Virgens • 0
0
votes
1
reply
1.0k
views
incorrect number of dimensions in probeSetSummary function from GOstats
GOstats GO R
updated 4.7 years ago by 68k • written 4.7 years ago by ▴ 10
3
votes
4
replies
1.7k
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3 Cytoscape Rgraphviz GOstats
5.8 years ago Matthew Thornton ▴ 380
0
votes
5
replies
1.8k
views
hyperGTest not working on custom annotation package
GOstats AnnotationDbi GO.db
updated 6.0 years ago by 68k • written 6.0 years ago by • 0
2
votes
2
replies
1.7k
views
GO.db source obo file?
gene ontology gostats go.db ontologies
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
0
votes
2
replies
1.4k
views
comparing two GOstats result lists
gostats statistics
updated 6.7 years ago by 68k • written 6.7 years ago by ▴ 30
3
votes
10
replies
1.6k
views
GO Stats results contain GO terms NOT present in the gene universe
gostats
updated 6.8 years ago by • 0 • written 6.8 years ago by ▴ 30
0
votes
1
reply
2.1k
views
how to run GO enrichment analysis for non-model organisms (errors when using hyperGTest)
gostats GO non_model
6.9 years ago zhaoran1124 • 0
0
votes
0
replies
1.4k
views
GOstats install Error : .onLoad failed in loadNamespace() for 'GO.db'
gostats go.db
7.0 years ago crafy • 0
0
votes
0
replies
1.4k
views
invalid names for slots of class GOHyperGResult
gostats
7.3 years ago laianavarromartin ▴ 20
0
votes
6
replies
2.0k
views
GO-terms delivered by GOstats hyperGTest() do not exist in my universe
GOstats
7.3 years ago martis.mihaela • 0
0
votes
1
reply
1.4k
views
Add gene information to most expressed gene list (packages lumi and GOstats)
annotation lumi GOstats
updated 7.4 years ago by 68k • written 7.4 years ago by • 0
0
votes
0
replies
1.2k
views
Question: Enrichment heatmap - GOstats package of R
Gostats p-value
7.6 years ago salamandra ▴ 20
0
votes
1
reply
1.1k
views
GOstats R Package
gostats
7.6 years ago arpa530 • 0
0
votes
0
replies
1.4k
views
Pathway analysis for diffrential express gene
pathways gage annotation gostats
8.0 years ago avinash gupta ▴ 130
4
votes
2
replies
1.7k
views
Why do I get different GO term sizes using the same gene universe for 2 analyses with GOstats?
gostats hypergeometric test
updated 8.0 years ago by 68k • written 8.0 years ago by ▴ 10
6
votes
6
replies
3.9k
views
Error in .checkKeys(value, Lkeys(x), x@ifnotfound)
Gostats go term annotation drosophila melanogaster error
updated 8.0 years ago by ▴ 10 • written 8.8 years ago by ▴ 300
2
votes
9
replies
4.4k
views
Unable to calculate in parallel what can be calculated on a for loop
biocparallel foreach org.hs.eg.db gostats
updated 8.3 years ago by 25k • written 8.3 years ago by ▴ 760
1
vote
2
replies
1.7k
views
Gene Ontology Overrepresentation Analysis with a custom level of Abstraction of GO Terminology
gene ontology GO overrepresentation analysis missmethyl gostats
updated 8.6 years ago by 68k • written 8.6 years ago by • 0
2
votes
1
reply
1.4k
views
Is possible to use an organism annotation package in simLL function?
gostats
updated 8.6 years ago by 68k • written 8.6 years ago by ▴ 760
0
votes
4
replies
1.7k
views
Error in GOFrame due to NA for unsupported organism (Gene Ontology)
reportingtools annotationhub gostats
updated 8.7 years ago by 68k • written 8.7 years ago by ▴ 20
0
votes
1
reply
3.9k
views
GOstats - Error in order(pvals) : argument 1 is not a vector
bioconductor r gostats
updated 8.7 years ago by 68k • written 8.7 years ago by • 0
0
votes
2
replies
1.4k
views
broken link to www.godatabase.org in results generated by htmlReport() from GOstats package ?
GOstats www.godatabase.org htmlReport
8.7 years ago c.kohler • 0
0
votes
3
replies
2.2k
views
Can not install 'affyio' with compiler icc on redhat linux ES5
GOstats GOstats
updated 8.7 years ago by ▴ 10 • written 14.3 years ago by ▴ 10
0
votes
1
reply
1.4k
views
Problem with GOstats - invalid names for slots of class GOHyperGResult
GOstat GOstats
8.7 years ago ccanchaya • 0
0
votes
2
replies
3.2k
views
Odd Odds Ratio in GOstats package
GO GOstats GO GOstats
updated 8.9 years ago by • 0 • written 10.9 years ago by ▴ 10
0
votes
0
replies
1.5k
views
Annotation, Over representation testing and Pathway analysis using Ensembl gene IDs
rnaseq annotation gostats org.Bt.eg.db
8.9 years ago mrodrigues.fernanda ▴ 10
13
votes
2
replies
5.1k
views
Best method/package for Gene Set Enrichment Analysis in microarrays?
GSEA goseq topgo gega gostats
updated 9.3 years ago by ★ 3.4k • written 9.3 years ago by ▴ 40
1
vote
0
replies
1.6k
views
enrichment analysis for gene pairs
go gostats category gsea
9.4 years ago Hector Corrada Bravo ▴ 60
1
vote
1
reply
1.6k
views
GoStats Hit Counter for website
gostats gostat
updated 9.4 years ago by ★ 8.2k • written 9.4 years ago by • 0
0
votes
1
reply
1.6k
views
GOstats and termGraph - Getting all of the plots out of the list
gostats rgraphviz
updated 9.5 years ago by ★ 6.8k • written 9.6 years ago by • 0
0
votes
0
replies
1.5k
views
hyperGTest for MSigDB categories
category gostats msigdb hypergeometric test
9.6 years ago petyuk ▴ 70
0
votes
2
replies
1.4k
views
Conditional test for goseq?
goseq gostats
updated 9.6 years ago by 52k • written 9.6 years ago by ★ 2.1k
0
votes
8
replies
2.5k
views
PFAM Enrichment in GOstats
PFAM Category GOstats
updated 9.8 years ago by ★ 1.2k • written 9.8 years ago by ▴ 930
1
vote
2
replies
1.5k
views
Mysterious warning message: "...in .local... ignoring 'pos' argument
warnings gostats
updated 9.9 years ago by 68k • written 9.9 years ago by • 0
0
votes
1
reply
1.1k
views
Alien GO result from GOstats
gostats
9.9 years ago Yue Zhao • 0
0
votes
3
replies
1.9k
views
Genes corresponding to GO terms for unsupported organsims
gostats unsupported organisms
updated 10.0 years ago by ★ 7.2k • written 10.0 years ago by ▴ 270
1
vote
10
replies
2.7k
views
Filtering genes for GOstats
gostats
10.1 years ago • updated 10.0 years ago nonCodingGene ▴ 10
0
votes
1
reply
1.9k
views
Customized GO enrichment with GOstat
GOstats
updated 10.1 years ago by 68k • written 10.1 years ago by • 0
0
votes
6
replies
2.5k
views
hyperGTest interpretation of 'under' and finding all Entrez associated with a GO term
Annotation GO gostats
updated 10.2 years ago by 52k • written 12.3 years ago by ▴ 70
0
votes
2
replies
2.1k
views
Incomplete gene IDs in KEGG pathway testing
gostats kegg
updated 10.3 years ago by 68k • written 10.3 years ago by • 0
3
votes
3
replies
2.7k
views
GOstats "count" question
gostats
updated 10.3 years ago by 68k • written 10.4 years ago by ▴ 10
4
votes
3
replies
3.5k
views
Select the annotation level during GO enrichment
topgo gostats go
updated 10.4 years ago by 68k • written 10.4 years ago by ▴ 80
0
votes
0
replies
2.5k
views
Gostats Hypergeometric tests for non model organisms Kegg pathway
Pathways GO Organism GOstats
10.5 years ago Luo Weijun ★ 1.6k
50 results • Page 1 of 1
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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…
Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0
why aren't there any answers?
Comment: Too many significant genes when integrating gtex and tcga by Jane • 0
I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…
Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180
Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…
Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k
No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
Votes
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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