Showing : Category • reset
0
votes
12
replies
3.2k
views
testing GO categories with Fisher's exact test.
GO Category GO Category
updated 20.2 years ago by 65k • written 20.2 years ago by ▴ 430
0
votes
11
replies
1.7k
views
'recursive default argument' error in GOENTREZID2GO
GO Biobase genefilter graph Category GO Biobase genefilter graph Category
updated 16.9 years ago by ★ 7.4k • written 16.9 years ago by ▴ 260
0
votes
6
replies
1.4k
views
hyperGTest
GO Cancer GOstats Category GO Cancer GOstats Category
updated 17.0 years ago by ★ 6.0k • written 17.0 years ago by ★ 7.4k
0
votes
6
replies
1.2k
views
where to start?
Classification Clustering Category Classification Clustering Category
updated 19.0 years ago by ★ 7.4k • written 19.0 years ago by ▴ 40
0
votes
5
replies
1.5k
views
error coercing an exprSet to ExpressionSet
GO cdf Biobase annotate multtest affy limma RBGL GOstats Category affycoretools GO cdf
updated 17.5 years ago by ★ 7.4k • written 17.5 years ago by ▴ 890
0
votes
9
replies
2.3k
views
GSEA, topGO, GOstats...? what's a good way to look at GO over-representation?
affy Category nudge affy Category nudge
updated 14.2 years ago by ★ 13k • written 14.2 years ago by ★ 1.9k
0
votes
8
replies
2.1k
views
PFAM Enrichment in GOstats
PFAM Category GOstats
updated 9.0 years ago by ★ 1.2k • written 9.0 years ago by ▴ 930
0
votes
2
replies
992
views
stat/math question on Category vignette
Pathways Category Pathways Category
updated 16.7 years ago by ★ 7.4k • written 16.7 years ago by ▴ 890
0
votes
4
replies
2.1k
views
disagreement between biomaRt and topGO
GO hgu133plus2 annotate geneplotter graph Rgraphviz PROcess goTools biomaRt Category GO
updated 16.7 years ago by ▴ 500 • written 16.7 years ago by ★ 1.4k
0
votes
4
replies
5.0k
views
goseq analysis - extracting list of my genes which are DE in the enriched GO category
GO Category goseq GO Category goseq
updated 8.1 years ago by ▴ 10 • written 12.7 years ago by ▴ 10
0
votes
3
replies
1.4k
views
help with using Category package with makecdfenv built Gene ST package
GO cdf affy limma Category GO cdf affy limma Category
updated 15.5 years ago by ★ 5.5k • written 15.5 years ago by ▴ 830
0
votes
2
replies
1.6k
views
Bioconductor Digest, Vol 82, Issue 20
Annotation Pathways affy GOstats Category AnnotationDbi Annotation Pathways affy GOstats
updated 14.4 years ago by ▴ 70 • written 14.4 years ago by ▴ 60
0
votes
3
replies
962
views
Trouble using GOstats
GO hgu133a Category GO hgu133a Category
updated 19.1 years ago by ★ 5.5k • written 19.1 years ago by ▴ 80
0
votes
3
replies
1.3k
views
grep GOID, R problem or my problem?
GO affy Category GO affy Category
updated 18.5 years ago by ★ 7.4k • written 18.5 years ago by ▴ 810
0
votes
2
replies
1.6k
views
can't load affycoretools because GOstats is broken. Can I load affycoretools without dependencies to use some functions?
GO Survival Biobase genefilter affy limma RBGL GOstats Category affyio affycoretools GO
17.2 years ago Mark W Kimpel ▴ 830
0
votes
2
replies
1.1k
views
hyperGTest and HyperGParams
Microarray Annotation GLAD Category Microarray Annotation GLAD Category
updated 16.5 years ago by ★ 5.5k • written 16.5 years ago by ▴ 500
0
votes
2
replies
1.0k
views
easyRNAseq question
Category DESeq easyRNASeq Category DESeq easyRNASeq
updated 11.8 years ago by ★ 13k • written 11.8 years ago by ▴ 190
0
votes
7
replies
1.4k
views
no summary of GOHyperGResult
GO GOstats Category GO GOstats Category
updated 13.8 years ago by 25k • written 13.8 years ago by ▴ 280
0
votes
2
replies
1.3k
views
KNN, SVM, and randomForest - How to predict test without known categories
Category Category
updated 19.8 years ago by ★ 1.8k • written 19.8 years ago by ▴ 120
0
votes
3
replies
1.9k
views
Affymetrix Intronic Normalization Control Probes Differentially Expressed?
probe limma Category probe limma Category
updated 12.1 years ago by 65k • written 12.1 years ago by ▴ 10
0
votes
2
replies
1.6k
views
function error for "hyperGTest" in Category package
Annotation probe Category Annotation probe Category
updated 14.5 years ago by 6.7k • written 14.5 years ago by ▴ 60
0
votes
9
replies
1.8k
views
problem with duplicateCorrelation and ExpressionSet objects
GO Survival cdf Biobase graph limma gcrma annaffy affyPLM simpleaffy biomaRt Category
updated 17.0 years ago by ★ 7.4k • written 17.0 years ago by ★ 2.2k
0
votes
5
replies
1.3k
views
retrieve genes names after KEGG hypergeometric test
Annotation Pathways GO rat2302 probe affy Category Annotation Pathways GO rat2302 probe
updated 13.5 years ago by ▴ 930 • written 13.5 years ago by ▴ 230
0
votes
5
replies
1.5k
views
problem with Category package and custom annotationDbi
Annotation Category AnnotationDbi Annotation Category AnnotationDbi
updated 15.5 years ago by ★ 5.5k • written 15.5 years ago by ▴ 830
0
votes
4
replies
940
views
cateGOry error
GO Category GO Category
updated 16.9 years ago by ★ 13k • written 16.9 years ago by ▴ 260
0
votes
2
replies
900
views
GO.db redundance
Annotation GO probe Category Annotation GO probe Category
updated 15.0 years ago by ★ 7.2k • written 15.0 years ago by ▴ 40
0
votes
2
replies
1.1k
views
decideTests limitation to certain lfc and p values not working
Category beadarray Category beadarray
updated 13.5 years ago by ▴ 650 • written 13.5 years ago by ▴ 100
0
votes
2
replies
1.2k
views
using GSEAlm with GO geneSetCollections
GO affy goTools Category GSEABase GSEAlm GO affy goTools Category GSEABase GSEAlm
updated 15.5 years ago by ▴ 90 • written 15.5 years ago by ▴ 830
0
votes
4
replies
1.9k
views
edgeR - coefficients in 3-factor experiment, complex contrasts and decideTestsDGE
limma Category edgeR limma Category edgeR
updated 12.5 years ago by ▴ 30 • written 12.5 years ago by 50k
0
votes
1
reply
957
views
Limma and Genepix
limma Category limma Category
updated 19.0 years ago by 50k • written 19.0 years ago by ▴ 40
0
votes
4
replies
1.6k
views
R: R: Probe-level analysis of exon arrays using xps
Annotation Normalization Breast Prostate probe Category xps Annotation Normalization xps
updated 12.7 years ago by ★ 3.9k • written 12.7 years ago by ▴ 80
0
votes
1
reply
1.1k
views
Annotating yeast ORFs with GO and KEGG
GO Yeast annotate Category GO Yeast annotate Category
updated 20.5 years ago by ▴ 70 • written 20.5 years ago by ▴ 80
0
votes
9
replies
1.2k
views
Help with 'annotation' in GOHyeprGParamsClass
Annotation GO Yeast Category Annotation GO Yeast Category
updated 15.5 years ago by ★ 5.5k • written 15.5 years ago by ▴ 50
0
votes
4
replies
1.4k
views
Anyone have a GO slim list for Affy HG-U133A or HG-U133Av2?
Annotation GO annotate affy PROcess Category cycle Annotation GO annotate affy PROcess
updated 19.2 years ago by ▴ 310 • written 19.2 years ago by ▴ 250
0
votes
1
reply
955
views
Affy mas5calls on Hu6800 arrays
Cancer hu6800 probe affy Category Cancer hu6800 probe affy Category
19.5 years ago Stronach, Euan A ▴ 20
0
votes
1
reply
939
views
warnings or potential problems in limma procedure
limma Category limma Category
13.1 years ago Yi, Ming NIH/NCI [C] ▴ 100
0
votes
1
reply
811
views
how to exrtact col. names from exprs()
GO Category GO Category
updated 19.7 years ago by ★ 1.8k • written 19.7 years ago by ▴ 320
0
votes
1
reply
732
views
GoHyperG question
GO GOstats Category GO GOstats Category
updated 19.8 years ago by ★ 2.9k • written 19.8 years ago by ▴ 10
0
votes
1
reply
1.7k
views
problem with AnnotationDbi
ChipName db0 affy Category AnnotationDbi ChipName db0 affy Category AnnotationDbi
updated 15.5 years ago by 16k • written 15.5 years ago by ▴ 830
0
votes
1
reply
819
views
Combining old Affy arrays for limma
rat2302 rgu34a rgu34b rgu34c affy limma Category rat2302 rgu34a rgu34b rgu34c affy
updated 15.5 years ago by 21k • written 15.5 years ago by ▴ 300
0
votes
1
reply
1.2k
views
[Rd] R/Sweave/cairo/freetype bug fix.
Category Category
updated 11.1 years ago by ▴ 60 • written 11.1 years ago by ▴ 30
0
votes
7
replies
1.3k
views
Odds Ratio in GOstat [resolved?]
GOstats Category GOstats Category
updated 17.4 years ago by ★ 6.0k • written 17.4 years ago by ★ 7.4k
0
votes
6
replies
2.2k
views
problem with GOHyperGParams in package Category
Annotation GO GOstats Category Annotation GO GOstats Category
updated 16.2 years ago by ▴ 570 • written 16.2 years ago by ▴ 830
0
votes
1
reply
1.1k
views
Problem with limma2biomaRt and MBNI custom CDF
Annotation GO cdf DynDoc genefilter tkWidgets affy graph limma RBGL biomaRt Category
updated 17.2 years ago by 65k • written 17.2 years ago by ▴ 300
0
votes
1
reply
1.6k
views
KNN, SVM, and randomForest - How to predict testing set without known categories (affy data)
Microarray Clustering Category Microarray Clustering Category
updated 19.8 years ago by ★ 1.8k • written 19.8 years ago by ▴ 120
0
votes
3
replies
1.8k
views
Can't get RCurl...
GO Survival annotate genefilter affy graph limma GOstats biomaRt Category affycoretools
updated 17.1 years ago by 65k • written 17.1 years ago by ★ 2.2k
0
votes
1
reply
794
views
GO Term2entrezgene
Category Category
updated 15.6 years ago by 21k • written 15.6 years ago by ★ 1.2k
0
votes
6
replies
1.6k
views
GOstats and custom annotation problem
Annotation GO annotate genefilter graph AnnBuilder RBGL GOstats Category Annotation GO
updated 17.3 years ago by 21k • written 17.3 years ago by ▴ 310
0
votes
2
replies
863
views
dye effects stronger than dye-swaps?
Microarray Normalization Category Microarray Normalization Category
updated 17.0 years ago by ★ 6.0k • written 17.0 years ago by ★ 2.2k
0
votes
2
replies
1.6k
views
problem with hist.default in affystart in package affycoretools
GO cdf annotate affy limma RBGL simpleaffy GOstats Category affyQCReport affyio GO cdf
updated 17.4 years ago by 65k • written 17.4 years ago by ▴ 890
50 results • Page 1 of 1
Recent ...
Replies
Comment: Store output of matchPWM() by James W. MacDonald 65k
Here's a self contained reproducible example, using part of the example in `?matchPWM` ``` > library(Biostrings) > data(HNF4alpha) > libr…
Comment: DEseq2 coefficient by JKim • 0
Hi Dr. Love, I'm sorry to ask another question to my old post. If the design isn't balanced, the interpretation of coefficients will be…
Comment: Store output of matchPWM() by mat149 ▴ 70
out <- do.call(c, lapply(hitlist, function(x) as(x, "IRanges"))) Error in do.call(c, lapply(hitlist, function(x) as(x, "IRanges"))) : '…
Answer: Store output of matchPWM() by James W. MacDonald 65k
Something like this? ``` ind <- as.logical(sapply(hitlist, length)) out <- do.call(c, lapply(hitlist, function(x) as(x, "IRanges"))) …
Answer: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k
This has been asked before, but with a multi factor design, the LFC for coefficient X adjust for the others, in a way that is often hard to…
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
Awards • All
Popular Question to tangming2005 ▴ 190
Popular Question to Ian D. ▴ 70
Popular Question to junhui.li11 • 0
Scholar to James W. MacDonald 65k
Popular Question to jeffrey.maurer • 0
Locations • All
Belgium, just now
United States, just now
United States, 1 minute ago
United States, 4 minutes ago
United States, 5 minutes ago
Traffic: 634 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6