Showing : dose • reset
0
votes
9
replies
4.5k
views
GEOquery installation problem
DOSE DOSE
14.7 years ago zhihua zhang ▴ 50
2
votes
6
replies
3.1k
views
leading edge analysis clusterProfiler DOSE custom GSEA
clusterprofiler DOSE GSEA_internal USER_DATA leading edge Analysis
7.5 years ago Riba Michela ▴ 90
0
votes
5
replies
1.3k
views
the result of bioconductor not agree with MAS
DOSE DOSE
updated 21.1 years ago by ▴ 60 • written 21.1 years ago by ▴ 100
2
votes
5
replies
1.8k
views
Need help setting up DESeq2 complex model for multi-dose experiment
deseq2 multiple time points dose
updated 7.2 years ago by 41k • written 7.2 years ago by • 0
0
votes
5
replies
3.0k
views
Finding genes with significant linear regression or trend
Microarray Regression Cancer limma DOSE Microarray Regression Cancer limma DOSE
updated 15.9 years ago by ▴ 340 • written 15.9 years ago by ★ 1.9k
0
votes
4
replies
1.4k
views
microarray analysis of a dose response * strain experiment
affy DOSE BRAIN affy DOSE BRAIN
updated 17.5 years ago by 21k • written 17.5 years ago by ▴ 890
4
votes
4
replies
4.1k
views
Clarifications on p-values in enrichResult objects
clusterProfiler reactomepa dose
updated 18 months ago by • 0 • written 7.6 years ago by ▴ 660
0
votes
4
replies
1.6k
views
GEO annotation
Annotation DOSE Annotation DOSE
updated 15.8 years ago by ★ 7.2k • written 15.8 years ago by ▴ 110
1
vote
4
replies
3.1k
views
gseDO function input
DOSE clusterprofiler
updated 6.7 years ago by ★ 1.2k • written 6.7 years ago by • 0
0
votes
3
replies
1.8k
views
Error in clusterProfiler package with function \"setReadable<-\"
GO clusterProfiler DOSE GO clusterProfiler DOSE
updated 10.8 years ago by ★ 8.2k • written 10.8 years ago by ★ 13k
4
votes
3
replies
1.8k
views
BiocParallel: object export issue
BiocParallel DOSE
updated 7.5 years ago by 25k • written 7.5 years ago by ★ 3.9k
0
votes
3
replies
1.2k
views
when do linear models work?
DOSE DOSE
20.1 years ago Arne.Muller@aventis.com ▴ 620
0
votes
3
replies
3.6k
views
Unable to generate a dotplot to view the enrichment analysis results (clusterProfiler/ enrichplot)
clusterProfiler enrichplot clusterpro doseR dose
updated 21 months ago by ★ 3.9k • written 21 months ago by ▴ 10
0
votes
3
replies
1.2k
views
Failed to install 'DOSE' package. Win10, 'single candle'
DOSE package installation windows10
6.8 years ago Yisong Zhen ▴ 200
1
vote
3
replies
1.6k
views
Subset of genes can find a term but whole set cannot
biomart dose
updated 6.9 years ago by 65k • written 6.9 years ago by • 0
2
votes
2
replies
3.4k
views
enrichGO from DOSE, clusterprofiler is returning empty result.
DOSE clusterprofiler annotation gene ontology gene set enrichment
updated 6.4 years ago by ★ 1.2k • written 6.4 years ago by ▴ 10
0
votes
2
replies
1.3k
views
about limma linear models
Microarray limma DOSE Microarray limma DOSE
updated 12.9 years ago by ▴ 40 • written 12.9 years ago by 50k
0
votes
2
replies
1.7k
views
PLANdbAffy + Alternative Exon Annotation +XPS, aroma, oligo, RMAExpress
Annotation cdf probe affy oligo xps DOSE Annotation cdf probe affy oligo xps DOSE
updated 13.4 years ago by ★ 4.3k • written 13.4 years ago by ▴ 120
0
votes
2
replies
2.0k
views
DO.db is missing after repeated installations-ReactomePA-ClusterProfiler-DOSE
software error reactomePA DOSE DO.db there is no package called ‘DO.db’
updated 4.4 years ago by 25k • written 4.4 years ago by • 0
1
vote
2
replies
2.4k
views
Regression using LIMMA
affy limma DOSE affy limma DOSE
updated 13.4 years ago by ★ 6.0k • written 13.4 years ago by ▴ 380
0
votes
2
replies
1.5k
views
Reference for edge and node properties suitable for enrichMap{DOSE}
DOSE ReactomePA enrichMap enrichPathway
updated 6.2 years ago by ★ 1.2k • written 6.2 years ago by • 0
0
votes
2
replies
1.8k
views
question about design for limma time course, 2 conditions and drug treatment microarray experiment
Microarray DOSE Microarray DOSE
updated 10.4 years ago by ▴ 190 • written 10.4 years ago by ★ 13k
0
votes
2
replies
1.5k
views
FW: PLANdbAffy + Alternative Exon Annotation +XPS, aroma, oligo, RMAExpress
Annotation cdf probe affy oligo xps DOSE Annotation cdf probe affy oligo xps DOSE
updated 13.4 years ago by ▴ 120 • written 13.4 years ago by ▴ 10
1
vote
2
replies
5.4k
views
ClusterProfiler DotPlot Vs Ridgeplot
clusterProfiler DOSE
updated 16 months ago by • 0 • written 19 months ago by • 0
0
votes
1
reply
1.5k
views
Re: Limma: M value in toptable
limma DOSE limma DOSE
updated 19.2 years ago by ▴ 60 • written 19.2 years ago by 50k
0
votes
1
reply
2.1k
views
Question on unbalanced paired design
Microarray Normalization GO limma DOSE Microarray Normalization GO limma DOSE
updated 11.0 years ago by ★ 7.9k • written 11.0 years ago by ▴ 40
1
vote
1
reply
1.6k
views
ReactomePA viewPathway DE node and legend colour
DOSE ReactomePA
7.3 years ago Kajus Baidžajevas ▴ 10
0
votes
1
reply
978
views
methodological question
DOSE DOSE
updated 21.0 years ago by ▴ 250 • written 21.0 years ago by ▴ 720
0
votes
1
reply
679
views
Program No Responding
DOSE DOSE
updated 20.9 years ago by ▴ 810 • written 20.9 years ago by ▴ 100
0
votes
1
reply
986
views
programming problem: running many ANOVAs
DOSE DOSE
updated 20.0 years ago by ▴ 130 • written 20.0 years ago by ▴ 620
0
votes
1
reply
1.2k
views
unbalanced design
limma DOSE limma DOSE
updated 19.4 years ago by 50k • written 19.4 years ago by ▴ 620
0
votes
1
reply
1.2k
views
normalizaton between studies
Normalization vsn DOSE Normalization vsn DOSE
updated 19.4 years ago by ▴ 10 • written 19.4 years ago by ▴ 620
0
votes
1
reply
2.1k
views
Dose-Response: Regressiion and ANOVA
Regression DOSE Regression DOSE
updated 19.3 years ago by ▴ 360 • written 19.3 years ago by ▴ 620
0
votes
1
reply
1.2k
views
limma: writing down the matrix in an almost (?) factorial design experiment
Microarray DOSE Microarray DOSE
14.2 years ago Massimo Pinto ▴ 390
0
votes
1
reply
1.5k
views
LIMMA: donor effect
Microarray limma DOSE Microarray limma DOSE
updated 13.0 years ago by ▴ 380 • written 13.0 years ago by 50k
0
votes
1
reply
1.4k
views
strange log2FoldChange estimates
RNASeq DOSE DESeq2 RNASeq DOSE DESeq2
9.7 years ago Shi, Tao ▴ 720
1
vote
1
reply
1.5k
views
Treatment dose in treatment-control RNA-seq
deseq2 edger dose rna-seq
updated 8.4 years ago by ★ 28k • written 8.4 years ago by • 0
0
votes
1
reply
977
views
How to change the siez of lables in heatmap
software error go dose heatplot gseGo
5.2 years ago aboumarshal • 0
1
vote
1
reply
1.2k
views
dotplot in DOSE
compilation error DOSE
6.0 years ago alper.kucukural ▴ 10
0
votes
1
reply
724
views
Disease semantic similarity
DOSE
5.0 years ago ahmettoprak42 • 0
0
votes
1
reply
109
views
compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 4 days ago by ★ 3.9k • written 8 days ago by • 0
0
votes
0
replies
916
views
Re: Classification question(Tom R. Fahland)
Classification DOSE Classification DOSE
20.0 years ago Tarca Adi Laurentiu ▴ 100
0
votes
0
replies
1.1k
views
Re: OpenPBS
webbioc DOSE webbioc DOSE
20.4 years ago Colin A. Smith ▴ 220
0
votes
0
replies
1.7k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
9.4 years ago Guangchuang Yu ★ 1.2k
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
0
replies
2.6k
views
Modifying the legend in cnetplot function
clusterProfiler DOSE
8.4 years ago Vinicius Henrique da Silva ▴ 40
0
votes
0
replies
1.6k
views
RMA normalization,which samples should be normalized together
Normalization probe affy limma gcrma DOSE Normalization probe affy limma gcrma DOSE
19.2 years ago Dipl.-Ing. Johannes Rainer ▴ 430
0
votes
0
replies
1.1k
views
Friedman test
DOSE DOSE
19.6 years ago Arne.Muller@aventis.com ▴ 620
0
votes
0
replies
1.4k
views
Anova with ratios
affy DOSE affy DOSE
19.9 years ago Arne.Muller@aventis.com ▴ 620
0
votes
0
replies
984
views
Probe level analysis
probe limma DOSE probe limma DOSE
19.9 years ago Arne.Muller@aventis.com ▴ 620
50 results • Page 1 of 1
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Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
Thank you for your suggestions! Here is the MA plot: ![enter image description here][1] I tried several normalization methods with DiffBi…
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.
Votes
Answer: OrgDb for maize
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
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