Showing : dose • reset
4
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4
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4.2k
views
Clarifications on p-values in enrichResult objects
clusterProfiler reactomepa dose
updated 19 months ago by • 0 • written 7.7 years ago by ▴ 660
4
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3
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1.9k
views
BiocParallel: object export issue
BiocParallel DOSE
updated 7.5 years ago by 25k • written 7.6 years ago by ★ 3.9k
2
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2
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3.5k
views
enrichGO from DOSE, clusterprofiler is returning empty result.
DOSE clusterprofiler annotation gene ontology gene set enrichment
updated 6.5 years ago by ★ 1.2k • written 6.5 years ago by ▴ 10
2
votes
6
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3.1k
views
leading edge analysis clusterProfiler DOSE custom GSEA
clusterprofiler DOSE GSEA_internal USER_DATA leading edge Analysis
7.6 years ago Riba Michela ▴ 90
2
votes
5
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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 42k • written 7.3 years ago by • 0
1
vote
4
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3.2k
views
gseDO function input
DOSE clusterprofiler
updated 6.8 years ago by ★ 1.2k • written 6.8 years ago by • 0
1
vote
1
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1.6k
views
Treatment dose in treatment-control RNA-seq
deseq2 edger dose rna-seq
updated 8.5 years ago by ★ 28k • written 8.5 years ago by • 0
1
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2
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5.6k
views
ClusterProfiler DotPlot Vs Ridgeplot
clusterProfiler DOSE
updated 16 months ago by • 0 • written 20 months ago by • 0
1
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3
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1.6k
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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
1
vote
2
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2.5k
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Regression using LIMMA
affy limma DOSE affy limma DOSE
updated 13.5 years ago by ★ 6.0k • written 13.5 years ago by ▴ 380
1
vote
1
reply
1.2k
views
dotplot in DOSE
compilation error DOSE
6.0 years ago alper.kucukural ▴ 10
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
0
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1.2k
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robust linear model in anovas
DOSE DOSE
20.1 years ago Arne.Muller@aventis.com ▴ 620
0
votes
1
reply
995
views
programming problem: running many ANOVAs
DOSE DOSE
updated 20.1 years ago by ▴ 130 • written 20.1 years ago by ▴ 620
0
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0
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803
views
A single linear model for all
DOSE DOSE
20.0 years ago Arne.Muller@aventis.com ▴ 620
0
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0
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1.1k
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Re: Classification question(Tom R. Fahland)
Classification DOSE Classification DOSE
20.0 years ago Stephen Henderson ★ 1.0k
0
votes
0
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1.0k
views
Probe level analysis
probe limma DOSE probe limma DOSE
20.0 years ago Arne.Muller@aventis.com ▴ 620
0
votes
0
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1.5k
views
Anova with ratios
affy DOSE affy DOSE
19.9 years ago Arne.Muller@aventis.com ▴ 620
0
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0
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1.1k
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Friedman test
DOSE DOSE
19.7 years ago Arne.Muller@aventis.com ▴ 620
0
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1
reply
1.3k
views
unbalanced design
limma DOSE limma DOSE
updated 19.4 years ago by 50k • written 19.4 years ago by ▴ 620
0
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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
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1
reply
2.1k
views
Dose-Response: Regressiion and ANOVA
Regression DOSE Regression DOSE
updated 19.4 years ago by ▴ 360 • written 19.4 years ago by ▴ 620
0
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0
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1.6k
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RMA normalization,which samples should be normalized together
Normalization probe affy limma gcrma DOSE Normalization probe affy limma gcrma DOSE
19.3 years ago Dipl.-Ing. Johannes Rainer ▴ 430
0
votes
1
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1.5k
views
Re: Limma: M value in toptable
limma DOSE limma DOSE
updated 19.3 years ago by ▴ 60 • written 19.3 years ago by 50k
0
votes
4
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1.5k
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
0
votes
0
replies
1.2k
views
microarray analysis of a dose response * strain experiment
Microarray affy limma maSigPro DOSE BRAIN Microarray affy limma maSigPro DOSE BRAIN
17.5 years ago Naomi Altman ★ 6.0k
0
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0
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1.1k
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about microarray batch effect and treatment effect
affy DOSE affy DOSE
16.4 years ago Aedin Culhane ▴ 510
0
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0
replies
1.2k
views
Expired Illumina expression chip - advice for use and experimental design
GO limma DOSE GO limma DOSE
16.3 years ago Johnstone, Alice ▴ 410
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 16.0 years ago by ▴ 340 • written 16.0 years ago by ★ 1.9k
0
votes
4
replies
1.6k
views
GEO annotation
Annotation DOSE Annotation DOSE
updated 15.9 years ago by ★ 7.2k • written 15.9 years ago by ▴ 110
0
votes
9
replies
4.5k
views
GEOquery installation problem
DOSE DOSE
14.8 years ago zhihua zhang ▴ 50
0
votes
1
reply
1.3k
views
limma: writing down the matrix in an almost (?) factorial design experiment
Microarray DOSE Microarray DOSE
14.3 years ago • updated 14.2 years ago Massimo Pinto ▴ 390
0
votes
2
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1.8k
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
1
reply
1.5k
views
LIMMA: donor effect
Microarray limma DOSE Microarray limma DOSE
updated 13.1 years ago by ▴ 380 • written 13.1 years ago by 50k
0
votes
2
replies
1.3k
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about limma linear models
Microarray limma DOSE Microarray limma DOSE
updated 13.0 years ago by ▴ 40 • written 13.0 years ago by 50k
0
votes
0
replies
1.1k
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Identifying expression trends in RNA-seq experiment - through edgeR
edgeR DOSE edgeR DOSE
10.9 years ago Sandhya Pemmasani Kiran ▴ 40
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
0
votes
0
replies
1.4k
views
Error in clusterProfiler package with function \"setReadable<-\"
GO Cancer Rgraphviz clusterProfiler DOSE GO Cancer Rgraphviz clusterProfiler DOSE
10.8 years ago Martin Morgan 25k
0
votes
0
replies
923
views
Re: Classification question(Tom R. Fahland)
Classification DOSE Classification DOSE
20.0 years ago Tarca Adi Laurentiu ▴ 100
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 10.5 years ago by ▴ 190 • written 10.5 years ago by ★ 13k
0
votes
1
reply
1.4k
views
strange log2FoldChange estimates
RNASeq DOSE DESeq2 RNASeq DOSE DESeq2
9.7 years ago Shi, Tao ▴ 720
0
votes
0
replies
1.7k
views
DOSE: an R/Bioconductor package for Disease Ontology Semantic and Enrichment analysis
enrichment genesetenrichment dose gosemsim
9.5 years ago Guangchuang Yu ★ 1.2k
0
votes
0
replies
2.7k
views
Modifying the legend in cnetplot function
clusterProfiler DOSE
8.4 years ago Vinicius Henrique da Silva ▴ 40
0
votes
3
replies
1.3k
views
Failed to install 'DOSE' package. Win10, 'single candle'
DOSE package installation windows10
6.9 years ago Yisong Zhen ▴ 200
0
votes
2
replies
1.6k
views
Reference for edge and node properties suitable for enrichMap{DOSE}
DOSE ReactomePA enrichMap enrichPathway
updated 6.3 years ago by ★ 1.2k • written 6.3 years ago by • 0
0
votes
1
reply
992
views
How to change the siez of lables in heatmap
software error go dose heatplot gseGo
5.3 years ago aboumarshal • 0
0
votes
0
replies
1.5k
views
Moving around nodes using emapplot {enrichplot} or enrichMap {DOSE}
enrichment map emapplot enrichplot enrichMap DOSE
5.9 years ago jan.soderman • 0
0
votes
1
reply
737
views
Disease semantic similarity
DOSE
5.0 years ago ahmettoprak42 • 0
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
0
votes
0
replies
762
views
Functional enrichment analysis for genomic data from non-model organism annotated based on model organism
DOSE hypeR goTools GOstats topGO
3.5 years ago Madza Farias-Virgens • 0
50 results • Page 1 of 1
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Comment: deseq2 results by swbarnes2 ★ 1.4k
Ask the people who made the libraires if there was anything unusual in the QC of the outlier sample. Try to figure out what biologically …
Comment: Can't post a question containing code? by NATASHA • 0
did you find a solution? I´m having the same problem
Comment: error by NATASHA • 0
Please ignore, i didnt copy all the scrip
Comment: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
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