Showing : yeast • reset
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Help with 'annotation' in GOHyeprGParamsClass
Annotation GO Yeast Category Annotation GO Yeast Category
updated 17.1 years ago by ★ 5.5k • written 17.1 years ago by ▴ 50
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3
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2.0k
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Bioconductor 2.3 is released
aCGH Sequencing miRNA Microarray Visualization Bayesian Classification Survival Yeast LPE
17.1 years ago Patrick Aboyoun ★ 1.6k
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0
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limma: Combining probe level data prior to fitting
Microarray Preprocessing Regression Yeast probe affy limma Microarray Preprocessing Yeast
17.2 years ago Alex Gutteridge ▴ 650
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0
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916
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Post hyperGTest : drawing GO graphs
GO Yeast GOstats topGO GO Yeast GOstats topGO
17.2 years ago balag Ganesan ▴ 140
0
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1
reply
902
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Affymetrix Yeast Tiling Arrays
Yeast affy Yeast affy
updated 17.2 years ago by ★ 13k • written 17.2 years ago by ▴ 50
0
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0
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1.6k
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Sc03b_MR_v04 CDF package
BiocViews Genetics Yeast cdf probe affy affxparser biocViews oligo pdInfoBuilder Yeast
17.3 years ago Ludo Muller ▴ 50
0
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6
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1.8k
views
Sc03b_MR_v04 CDF package
Genetics Yeast cdf Genetics Yeast cdf
updated 17.3 years ago by 68k • written 17.3 years ago by ▴ 50
0
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1
reply
1.3k
views
limma and duplicate correlation
Yeast Yeast
updated 17.3 years ago by ▴ 910 • written 17.3 years ago by ▴ 160
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4
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1.7k
views
Gostats with Yeast annotation
Annotation GO Yeast GOstats Annotation GO Yeast GOstats
updated 17.4 years ago by ★ 7.2k • written 17.4 years ago by ▴ 650
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1
reply
902
views
GraphAT help?
Yeast GraphAT Yeast GraphAT
updated 17.6 years ago by 6.7k • written 17.6 years ago by ★ 1.1k
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0
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1.1k
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made4, memory issues
Network Clustering Cancer Yeast made4 Network Clustering Cancer Yeast made4
18.1 years ago Aedin Culhane ▴ 510
0
votes
0
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2.1k
views
Median-Interquartile Normalization
Microarray SystemsBiology Annotation GO Preprocessing Clustering Cancer Yeast Organism GO
18.1 years ago McGee, Monnie ▴ 300
0
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10
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2.2k
views
how to build a GOstats-compatible annotation package for plasmodium falciparum?
Annotation Yeast GOstats Annotation Yeast GOstats
updated 18.1 years ago by ▴ 30 • written 18.1 years ago by ★ 1.1k
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5
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2.1k
views
KEGG & hyperGTest: an example?
Annotation Yeast Organism Annotation Yeast Organism
updated 18.1 years ago by ▴ 150 • written 18.1 years ago by ★ 1.1k
0
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1
reply
1.1k
views
Microarray data with outliers
Yeast Yeast
updated 18.1 years ago by 21k • written 18.1 years ago by ▴ 70
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2
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1.5k
views
AnnBuilder questions
Annotation GO Yeast hgu95av2 probe geneplotter AnnBuilder Annotation GO Yeast hgu95av2
updated 18.3 years ago by ★ 7.2k • written 18.3 years ago by ▴ 30
0
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1
reply
4.0k
views
RE : create an new AnnotatedDataFrame
Annotation Survival Yeast Biobase genefilter tkWidgets marray convert arrayMagic affyio
updated 18.3 years ago by 25k • written 18.3 years ago by ▴ 30
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1
reply
2.1k
views
create an new AnnotatedDataFrame
Survival Yeast Biobase genefilter tkWidgets marray convert arrayMagic affyio Survival
updated 18.3 years ago by 25k • written 18.3 years ago by ▴ 30
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3
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1.5k
views
trouble using GCRMA
Yeast cdf gcrma Yeast cdf gcrma
updated 18.5 years ago by ▴ 200 • written 18.5 years ago by ▴ 10
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0
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910
views
Yeast Tiling Array BPMAP
Yeast Yeast
18.5 years ago iromashk@student.umass.edu ▴ 30
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0
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753
views
Question about Yeast Microarray
Yeast Yeast
18.6 years ago Ajit Kulkarni ▴ 10
0
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0
replies
751
views
SemSim GOCount question
GO Yeast GO Yeast
18.7 years ago Ariel Chernomoretz ▴ 170
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0
replies
1.1k
views
Differentially Expressed Genes in Time Series with Replications
Yeast cycle Yeast cycle
18.9 years ago peter robinson ▴ 300
0
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1
reply
1.2k
views
GOENTREZID2GO hard-coded in GOstats:makeGOGraph
Annotation GO Network Yeast graph GOstats Annotation GO Network Yeast graph GOstats
updated 19.0 years ago by ★ 7.4k • written 19.0 years ago by ★ 1.1k
0
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1
reply
1.7k
views
[Bioc-devel] SNPscan -> SNPchip
SNP Annotation Yeast Biobase SNPchip SNP Annotation Yeast Biobase SNPchip
updated 19.1 years ago by ▴ 250 • written 19.1 years ago by ▴ 170
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0
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views
last call for Boston bioc Training, 13-15 july, content revised
Annotation GO Preprocessing Clustering Yeast probe RSNPper biomaRt Annotation GO Yeast
19.4 years ago Vincent J. Carey, Jr. 6.7k
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2
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1.2k
views
Run GOHyperG on yeast without specifying a chip
Microarray Yeast PROcess Microarray Yeast PROcess
updated 19.4 years ago by 68k • written 19.4 years ago by ▴ 100
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1
reply
1.0k
views
yeast2 LOCUSID environment
Annotation Yeast yeast2 Annotation Yeast yeast2
updated 19.5 years ago by ★ 2.9k • written 19.5 years ago by ▴ 320
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0
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1.6k
views
Bioconductor 1.8 for R 2.3.0 is released!
BiocViews aCGH SNP Microarray Annotation GO Clustering Cancer Yeast cdf probe RMAGEML
19.6 years ago Seth Falcon ★ 7.4k
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0
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1.3k
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High-Throughput Data Analysis Course Announcement: Cold Spring Harbor Labs - June 14-27
SNP Microarray Proteomics Normalization Classification Cancer CGH Yeast SNP Microarray
19.7 years ago Mark Reimers ▴ 70
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0
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923
views
Problems with mas5calls for ygs98 chips
Yeast probe Yeast probe
19.8 years ago Jarno Tuimala ▴ 140
0
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1
reply
948
views
Unable to get expression-values from cel-files of yeast
Yeast cdf affy Yeast cdf affy
updated 19.8 years ago by 68k • written 19.8 years ago by ▴ 10
0
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0
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948
views
Fwd: Re: Run GOHyperG without specifying a chip
Annotation Yeast Annotation Yeast
19.8 years ago Mikko Arvas ▴ 90
0
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1
reply
1.3k
views
gocluster error: Ontology MF has no GO terms left. in
Annotation GO Yeast mgug4122a goCluster Annotation GO Yeast mgug4122a goCluster
updated 19.9 years ago by ▴ 60 • written 19.9 years ago by ▴ 30
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2
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1.3k
views
SimpleAffy: problem with Yeast Genome 2.0 Array
Yeast cdf simpleaffy Yeast cdf simpleaffy
updated 20.1 years ago by ★ 2.2k • written 20.1 years ago by ▴ 170
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1
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1.4k
views
Several questions goCluster and GOstats...
Annotation GO Visualization Yeast goCluster Annotation GO Visualization Yeast goCluster
updated 20.3 years ago by ▴ 60 • written 20.3 years ago by ▴ 140
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1
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1.4k
views
simLL method in GOstats to measure distances between yeast genes
Yeast hgu95av2 ygs98 Yeast hgu95av2 ygs98
updated 20.5 years ago by ★ 5.5k • written 20.5 years ago by ▴ 100
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1
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1.3k
views
Cho et al.'s Expression Dataset in Yeast
Yeast cycle Yeast cycle
updated 20.6 years ago by ▴ 60 • written 20.6 years ago by ▴ 20
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3
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1.5k
views
getting closer on YEAST 2.0 annotation...
Annotation GUI Yeast probe Annotation GUI Yeast probe
updated 20.8 years ago by ★ 2.9k • written 20.8 years ago by ▴ 320
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2
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1.9k
views
annaffy: YEAST vs. Affy YEAST_2 annotation
Annotation Yeast probe annaffy AnnBuilder Annotation Yeast probe annaffy AnnBuilder
updated 20.8 years ago by ▴ 220 • written 20.8 years ago by ▴ 320
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2
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1.4k
views
trouble with yeastann function in AnnBuilder
Annotation Yeast probe AnnBuilder safe Annotation Yeast probe AnnBuilder safe
updated 20.8 years ago by ▴ 10 • written 20.8 years ago by ▴ 320
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5
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1.7k
views
affy Yeast 2.0 annotation
Annotation Yeast affy limma AnnBuilder Annotation Yeast affy limma AnnBuilder
updated 20.9 years ago by 6.7k • written 20.9 years ago by ▴ 320
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3
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1.2k
views
Yeast and LocuslinkIDs
GO Yeast GO Yeast
updated 20.9 years ago by 21k • written 20.9 years ago by ▴ 60
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0
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980
views
TAG3 script
Yeast cdf probe affy Yeast cdf probe affy
20.9 years ago Joshi, Nina NIH/NCI ▴ 40
0
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0
replies
775
views
cdf environment for Yeast 2.0 array
Yeast cdf affy Yeast cdf affy
21.0 years ago Jakub Orzechowski Westholm ▴ 40
0
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2
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1.1k
views
affy package and segmentation error
Yeast Yeast
updated 21.1 years ago by ▴ 950 • written 21.1 years ago by ▴ 40
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3
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1.5k
views
Error doing Mas5 calculation with Simpleaffy package
Yeast affy simpleaffy Yeast affy simpleaffy
updated 21.5 years ago by ★ 1.1k • written 21.6 years ago by ▴ 50
0
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0
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1.1k
views
Re: metaData
Annotation GO Yeast probe Annotation GO Yeast probe
21.9 years ago John Zhang ★ 2.9k
0
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2
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1.2k
views
index between genes and pathways
Pathways GO Yeast Pathways GO Yeast
updated 22.1 years ago by ★ 5.5k • written 22.1 years ago by ▴ 80
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1
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1.6k
views
Annotating yeast ORFs with GO and KEGG
GO Yeast annotate Category GO Yeast annotate Category
updated 22.1 years ago by ▴ 70 • written 22.1 years ago by ▴ 80
110 results • Page 2 of 3
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Comment: BiocParallel (and DESeq2) - wrong args for environment subassignment by Michael Love 43k
BTW, I tested with no issue on MacOS ARM on our previous github issue.
Answer: DESeq(dds, parallel=TRUE) wrong args for environment subassignment by Michael Love 43k
The DESeq2 error makes sense, as we've talked about, given that the simple `bplapply` isn't working in your setup. Maybe give the traceb…
Answer: PTM analysis in LIMPA by Gordon Smyth 53k
For PTM analysis, the usual quantification command dpcQuant() is replaced by dpcImpute(). Otherwise the limpa pipeline is the same as for a…
Answer: problem reading bam files into nucleR by James W. MacDonald 68k
The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…
Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k
It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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