Showing : yeast • reset
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GOSim yeast
GO Yeast GOSim GO Yeast GOSim
updated 7.1 years ago by • 0 • written 12.0 years ago by ★ 13k
3
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3
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2.0k
views
Goseq and yeast
goseq yeast
9.2 years ago Marek Gierlinski ▴ 30
1
vote
2
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1.8k
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GOSemSim problem for yeast proteins
GOSemSim yeast
updated 9.2 years ago by ★ 1.2k • written 9.2 years ago by ▴ 10
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0
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1.3k
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mgsa vignette gives an error with the full yeast GAF
mgsa GO yeast software error
9.3 years ago nmcglincy • 0
3
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4
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1.6k
views
ORF lengths using Yeast Annotation package
yeast genomicranges
9.6 years ago • updated 9.5 years ago dktarathym • 0
0
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1
reply
1.5k
views
GOseq with ce6
GO Yeast Organism goseq genomes GO Yeast Organism goseq genomes
updated 10.1 years ago by ▴ 310 • written 10.1 years ago by ▴ 50
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5
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1.7k
views
problem with makeGOGraph function
Yeast graph GOstats Yeast graph GOstats
updated 10.1 years ago by 65k • written 10.1 years ago by ★ 13k
0
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9
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1.9k
views
variantAnnotation: alternative GENETIC_CODE, and circular chromosomes?
VariantAnnotation Cancer Yeast annotate Biostrings VariantAnnotation VariantAnnotation
updated 10.3 years ago by 16k • written 10.3 years ago by ▴ 740
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1
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1.3k
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I need help making a dcf seed file to encapsulate a genome assembly im using.
Cancer Yeast BSgenome BSgenome Cancer Yeast BSgenome BSgenome
updated 10.3 years ago by ▴ 10 • written 10.3 years ago by 16k
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3
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1.7k
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retrieving external Gene IDs from TranscriptDB Object
Yeast TranscriptDb Yeast TranscriptDb
updated 11.0 years ago by ▴ 340 • written 11.0 years ago by ▴ 360
0
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2
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1.9k
views
getSequence from biomaRt changes the order of sequences given as input - is it normal?
Yeast biomaRt Yeast biomaRt
updated 11.3 years ago by ▴ 540 • written 11.3 years ago by ▴ 270
0
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0
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993
views
GOSim Problem
Yeast Organism GOSim Yeast Organism GOSim
11.6 years ago Pablo Andretta Jaskowiak ▴ 10
0
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0
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828
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ChIPpeakAnno, callEnrichedRegions results have "holes"
Yeast Yeast
11.7 years ago Susan Wilson ▴ 50
0
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1
reply
1.1k
views
GOSemSim comparison between species
Yeast GOSemSim Yeast GOSemSim
updated 11.9 years ago by ★ 8.2k • written 11.9 years ago by ▴ 10
0
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15
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2.9k
views
Rsubread crashes in 32bit linux
Yeast Rsubread Yeast Rsubread
updated 11.9 years ago by ★ 3.6k • written 11.9 years ago by ★ 3.3k
0
votes
2
replies
1.2k
views
oligo and pdInfoBuilder
Annotation Yeast oligo pdInfoBuilder Annotation Yeast oligo pdInfoBuilder
updated 11.9 years ago by 6.7k • written 11.9 years ago by ▴ 340
0
votes
6
replies
1.4k
views
Questions about edgeR
Yeast edgeR Yeast edgeR
updated 12.4 years ago by ▴ 880 • written 12.4 years ago by ▴ 290
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0
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936
views
annotation package for Schizosacharomyces pombe
Annotation Yeast yeast2 Annotation Yeast yeast2
12.6 years ago Clémentine Dressaire ▴ 120
0
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0
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1.0k
views
GetEnrichedGo term
Yeast biomaRt Yeast biomaRt
12.6 years ago Julie Zhu ★ 4.3k
0
votes
1
reply
981
views
A question about the coordinate system in the yeast database
Annotation Yeast Annotation Yeast
updated 12.7 years ago by 16k • written 12.7 years ago by ▴ 20
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0
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1.0k
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Useful information about Ensembl release 63 mart databases
Annotation GO Yeast Vega Annotation GO Yeast Vega
12.8 years ago Rhoda Kinsella ▴ 660
0
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0
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1.7k
views
limma: multiple regression
Regression Yeast yeast2 limma Regression Yeast yeast2 limma
12.9 years ago Gordon Smyth 50k
0
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0
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1.2k
views
empty go terms with bioMart
GO Yeast probe PROcess biomaRt GO Yeast probe PROcess biomaRt
13.0 years ago chawla ▴ 190
0
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8
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2.0k
views
Rsubread alingner
Alignment Yeast Rsubread Alignment Yeast Rsubread
13.0 years ago Wei Shi ★ 3.6k
0
votes
2
replies
1.1k
views
Procedure
Yeast PROcess Yeast PROcess
updated 13.3 years ago by 21k • written 13.3 years ago by ▴ 240
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2
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1.6k
views
Flanking TSS region for reverse strand using biomaRt
Yeast Organism biomaRt Yeast Organism biomaRt
updated 13.4 years ago by ▴ 10 • written 13.4 years ago by ▴ 340
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2
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1.4k
views
New gage package: Generally Applicable Gene-set/Pathway Analysis
Sequencing Microarray Pathways GO Yeast gage Sequencing Microarray Pathways GO Yeast
13.6 years ago • updated 13.5 years ago Luo Weijun ★ 1.6k
0
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1
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1.7k
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Question: How does limma derives its logFC value in two colored arrays?
Yeast affy vsn limma Yeast affy vsn limma
updated 13.6 years ago by ▴ 350 • written 13.6 years ago by 50k
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1
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1.6k
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tilingArray getting started questions
GO Yeast tilingArray Starr GO Yeast tilingArray Starr
13.7 years ago Noah Dowell ▴ 410
0
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1
reply
989
views
Long Time Series analysis
Microarray Yeast Microarray Yeast
updated 13.7 years ago by ▴ 230 • written 13.7 years ago by ▴ 720
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0
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712
views
Long Time Series analysis
Microarray Yeast Microarray Yeast
13.7 years ago Xiaokuan Wei ▴ 230
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0
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587
views
[limma] Separate Channel Analysis of 2 color data with summarization
Normalization Yeast limma Normalization Yeast limma
13.7 years ago Gordon Smyth 50k
0
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0
replies
1.0k
views
[limma] Separate Channel Analysis of 2 color data with summarization
Normalization Yeast limma Normalization Yeast limma
13.7 years ago Ana Conesa ▴ 340
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0
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1.8k
views
Postdoctoral positions at Harvard
Genetics Cancer Yeast Genetics Cancer Yeast
13.8 years ago Edo Airoldi ▴ 10
0
votes
2
replies
900
views
Regarding ScISI
Yeast ScISI Yeast ScISI
updated 13.9 years ago by ★ 7.2k • written 13.9 years ago by ▴ 270
0
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6
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1.6k
views
Question RE: getEnrichedGo in ChIPpeakAnno package
Yeast ChIPpeakAnno Starr Yeast ChIPpeakAnno Starr
updated 13.9 years ago by ★ 4.3k • written 13.9 years ago by ▴ 410
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3
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1.3k
views
Error using getMeans function in Ringo/Starr
Yeast probe Ringo Yeast probe Ringo
14.0 years ago Noah Dowell ▴ 410
0
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2
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2.5k
views
org.Sc.sgd.db: Yeast ensembl ID to entrez ID conversion problem
GO Yeast GO Yeast
14.1 years ago Julie Zhu ★ 4.3k
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1
reply
1.2k
views
Help with Oligo Package: Extracting and Graphing
Transcription Normalization Yeast probe affy graph tilingArray oligo pdInfoBuilder Starr
updated 14.5 years ago by ▴ 430 • written 14.5 years ago by ▴ 410
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2
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1.1k
views
YEAST package
Pathways Yeast Pathways Yeast
14.6 years ago suman Duvvuru ▴ 20
0
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1
reply
1.2k
views
Gene ID of yeast in GOSemSim and other GO related package may need update
Annotation GO Yeast biomaRt GOSemSim GOSim Annotation GO Yeast biomaRt GOSemSim GOSim
updated 14.7 years ago by ★ 7.2k • written 14.7 years ago by ▴ 20
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2
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1.7k
views
GO terms for E. coli micro arrays (ecoliK12.db generation)
Annotation GO Yeast db0 probe topGO AnnotationDbi Annotation GO Yeast db0 probe topGO
updated 14.9 years ago by ★ 7.2k • written 14.9 years ago by ▴ 20
0
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0
replies
905
views
Gostats and custom list
Annotation Pathways GO Yeast convert GOstats Category Annotation Pathways GO Yeast
15.2 years ago Iain Wallace ▴ 50
0
votes
3
replies
1.1k
views
Gostats and custom list
Annotation Yeast convert GOstats AnnotationDbi Annotation Yeast convert GOstats
updated 15.2 years ago by ★ 7.2k • written 15.2 years ago by ▴ 50
0
votes
3
replies
1.4k
views
Gostats with Yeast annotation
Microarray Annotation GO Cancer Yeast GOstats Microarray Annotation GO Cancer Yeast
15.2 years ago Yolande Tra ▴ 160
0
votes
1
reply
1.2k
views
GOstats: HyperGTest for KEGG
Annotation GO Yeast hgu133a hgu133b hgu133plus2 hgu95a hgu95av2 hgug4110b hgug4112a GO
updated 15.3 years ago by ★ 7.2k • written 15.3 years ago by ▴ 180
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0
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1.2k
views
GOstats: hyperGTest for KEGG with org.Sc.sgd.db
Annotation GO Yeast hgu133a hgu133b hgu133plus2 hgu95a hgu95av2 hgug4110b hgug4112a GO
15.3 years ago Paul Evans ▴ 180
0
votes
0
replies
949
views
Fwd: RMA error in cdf environment with removed probes (Yeast2)
Yeast yeast2 cdf probe Yeast yeast2 cdf probe
15.3 years ago Omri Yahel ▴ 70
0
votes
2
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1.2k
views
biological reps and dye-swaps and duplicate spots in a common reference design
Yeast limma a4 Yeast limma a4
updated 15.5 years ago by ★ 2.0k • written 15.5 years ago by ▴ 10
0
votes
4
replies
1.1k
views
applicability of tilingArray package
Normalization Yeast affy tilingArray Normalization Yeast affy tilingArray
updated 15.5 years ago by ★ 13k • written 15.5 years ago by ▴ 50
50 results • Page 1 of 1
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Answer: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
Hi Michael, I think there is something wrong with the generation of nullranges. I was working with small RNA and methylation overlaps. …
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Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
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It is true that goseq isn't available for Bioc 3.19 (as at 4 May 2024). In the meantime, you could consider using the goana() and kegga() …
Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
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