Showing : genetics • reset
0
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5
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2.0k
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downloading different kinds of microarray data
Sequencing Microarray Genetics Annotation gpls convert GEOquery GEOmetadb Sequencing gpls
updated 13.7 years ago by ▴ 30 • written 13.7 years ago by 21k
0
votes
3
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1.2k
views
GO analysis
Genetics Annotation GO Genetics Annotation GO
updated 20.4 years ago by ★ 1.1k • written 20.4 years ago by ▴ 100
0
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3
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1.2k
views
gene2pathway retrain: which model is more complete?
Genetics Coverage biomaRt gene2pathway Genetics Coverage biomaRt gene2pathway
13.7 years ago Bogdan ▴ 50
0
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5
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2.4k
views
mRNA-seq cross-species analysis, is it possible?
Genetics Normalization Proteome DESeq Genetics Normalization Proteome DESeq
updated 12.7 years ago by ▴ 20 • written 12.7 years ago by ▴ 370
0
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3
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1.3k
views
package simpleaffy
Genetics affy simpleaffy Genetics affy simpleaffy
updated 20.1 years ago by ★ 3.9k • written 20.1 years ago by ▴ 20
0
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3
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1.0k
views
Limma question
Genetics limma Genetics limma
updated 18.2 years ago by ★ 6.0k • written 18.2 years ago by ▴ 310
0
votes
7
replies
1.7k
views
Seeking assistance on ROC
Genetics ROC Genetics ROC
14.3 years ago • updated 14.2 years ago Susan Bosco ▴ 80
0
votes
8
replies
2.8k
views
Expected number of DE genes?
Genetics edgeR DESeq2 Genetics edgeR DESeq2
updated 9.8 years ago by ▴ 750 • written 9.8 years ago by ▴ 140
0
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3
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1.2k
views
RE ChIPPEAKANNO
miRNA Genetics ChIPpeakAnno miRNA Genetics ChIPpeakAnno
11.6 years ago Julie Zhu ★ 4.3k
0
votes
3
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1.5k
views
R: Pathway Information
Genetics Pathways Cancer probe globaltest Genetics Pathways Cancer probe globaltest
updated 18.9 years ago by ▴ 360 • written 18.9 years ago by ★ 2.9k
0
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2
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1.1k
views
RE: Display scale on hclust heatmap (Warnes, Gregory R )
Genetics Genetics
20.4 years ago Warnes, Gregory R ▴ 460
0
votes
2
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1.1k
views
just.gcrma and normalisation
Genetics affy gcrma Genetics affy gcrma
updated 17.8 years ago by ▴ 200 • written 17.8 years ago by ▴ 310
0
votes
2
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1.1k
views
AnnBuilder subscript out of bounds error
Microarray Genetics Annotation GO probe AnnBuilder PROcess Microarray Genetics Annotation
updated 18.1 years ago by ▴ 780 • written 18.1 years ago by ▴ 20
0
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2
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987
views
Partial F-test using LIMMA
Genetics limma Genetics limma
updated 19.1 years ago by ▴ 110 • written 19.1 years ago by ▴ 20
0
votes
2
replies
1.1k
views
multtest library load problem
Genetics Cancer Genetics Cancer
updated 21.9 years ago by ▴ 280 • written 21.9 years ago by ▴ 10
0
votes
2
replies
1.5k
views
strange layering in PCA after removeBatchEffect()
Genetics limma Genetics limma
updated 10.4 years ago by ▴ 10 • written 10.4 years ago by ▴ 90
0
votes
2
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1.6k
views
a workflow of population genomic operations/analysis using bioconductor
Genetics genomes Genetics genomes
updated 13.4 years ago by ★ 11k • written 13.4 years ago by ▴ 290
0
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4
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1.5k
views
snpStats, read.long, alleles in two columns
SNP Genetics snpStats SNP Genetics snpStats
updated 12.1 years ago by ▴ 20 • written 12.1 years ago by ▴ 30
0
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2
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1.2k
views
Error messege in edgeR: Error in t(y) + prior.count.scaled : non-conformable arrays
Genetics Genetics
updated 10.2 years ago by 50k • written 10.2 years ago by ▴ 10
0
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2
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1.4k
views
DESeq variance stabilisation and clustering
Genetics Clustering PROcess DESeq Genetics Clustering PROcess DESeq
updated 13.1 years ago by ▴ 30 • written 13.1 years ago by ▴ 20
0
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2
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813
views
DESeq estimateDispersion options for lower depth
Genetics GO Genetics GO
12.1 years ago Aggarwal, Praful ▴ 50
2
votes
7
replies
4.9k
views
Extend GRanges start/end
Genetics GenomicFeatures Genetics GenomicFeatures
updated 11.5 years ago by ★ 11k • written 11.5 years ago by ▴ 490
0
votes
2
replies
811
views
problem with qPCR raw data
Genetics Genetics
updated 14.3 years ago by ★ 2.0k • written 14.3 years ago by ▴ 60
3
votes
5
replies
2.2k
views
How to Find Common Dysregulated Genes in Two or More Sets of Microarray Data?
disease genetics micro array data microarray
updated 9.0 years ago by 50k • written 9.1 years ago by ▴ 20
0
votes
2
replies
920
views
Help to understand logistic model used in MEDME
Genetics MEDME Genetics MEDME
updated 14.4 years ago by ★ 4.2k • written 14.4 years ago by ▴ 80
0
votes
3
replies
2.7k
views
Outlier detection in DEseq
Genetics DESeq Genetics DESeq
updated 13.5 years ago by ★ 3.7k • written 13.5 years ago by ▴ 20
0
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3
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1.2k
views
Annotation of U95av2 array
Microarray Genetics Annotation GO Cancer hgu95av2 probe affy AnnBuilder PROcess Genetics
updated 17.0 years ago by ▴ 870 • written 17.0 years ago by 65k
1
vote
3
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3.5k
views
Limma: correct calculation of B statistics (log odds)
Microarray Genetics limma limmaGUI Microarray Genetics limma limmaGUI
updated 18.0 years ago by ★ 1.9k • written 18.0 years ago by 50k
0
votes
2
replies
943
views
Could limma be as good as GeneSpring in nomalization?
Genetics limma Genetics limma
updated 19.4 years ago by ★ 1.8k • written 19.4 years ago by ▴ 90
0
votes
2
replies
988
views
DESeq - non-differential expression
Sequencing miRNA Genetics DESeq Sequencing miRNA Genetics DESeq
updated 13.0 years ago by ▴ 180 • written 13.0 years ago by ▴ 10
0
votes
2
replies
1.2k
views
limma Normalization question
Genetics Normalization limma GeneSpring limmaGUI Genetics Normalization limma GeneSpring
18.4 years ago Gordon Smyth 50k
0
votes
2
replies
2.3k
views
limma, spot and technical replicates
Genetics limma limmaGUI Genetics limma limmaGUI
updated 18.4 years ago by ▴ 150 • written 18.4 years ago by ▴ 110
0
votes
2
replies
763
views
Custom CDFs from U mich for GeneChip Analysis
Genetics Cancer Genetics Cancer
updated 17.5 years ago by 65k • written 17.5 years ago by ▴ 50
0
votes
7
replies
1.5k
views
Plate or print-order effects - limma
Genetics limma Genetics limma
updated 17.3 years ago by ▴ 500 • written 17.3 years ago by 50k
0
votes
4
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1.7k
views
allen brain atlas
Genetics Annotation BRAIN Genetics Annotation BRAIN
updated 15.7 years ago by 25k • written 15.7 years ago by ▴ 60
0
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3
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1.4k
views
Clustering and gene modules
Genetics Clustering Cancer goCluster Genetics Clustering Cancer goCluster
updated 19.3 years ago by 21k • written 19.3 years ago by ▴ 40
0
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4
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13k
views
Normalization by DEseq
Genetics Normalization DESeq Genetics Normalization DESeq
updated 6.1 years ago by • 0 • written 13.5 years ago by ▴ 20
1
vote
12
replies
3.3k
views
Problem running summarizeOverlaps()
Genetics Genetics
updated 8.2 years ago by ▴ 10 • written 9.9 years ago by ▴ 140
0
votes
1
reply
925
views
Problems with hgu133acdf...!
Genetics cdf probe affy Genetics cdf probe affy
updated 20.6 years ago by 65k • written 20.6 years ago by ▴ 30
0
votes
1
reply
1.3k
views
Re: Single channel normalization
Genetics Normalization GO limma Genetics Normalization GO limma
updated 20.6 years ago by ▴ 60 • written 20.6 years ago by ▴ 30
0
votes
1
reply
837
views
Build an Annotation with GO2ALLPROBES
Genetics Annotation AnnBuilder GOstats Genetics Annotation AnnBuilder GOstats
updated 18.1 years ago by ▴ 780 • written 18.1 years ago by ▴ 20
0
votes
3
replies
1.4k
views
Bioconductor Digest, Vol 66, Issue 2 Message 7 (apologies; long and veering off topic)
Genetics Annotation Genetics Annotation
updated 15.7 years ago by ▴ 910 • written 15.7 years ago by ▴ 90
0
votes
1
reply
801
views
Bug in Biobase 1.3.22
Genetics Genetics
updated 20.9 years ago by ★ 3.9k • written 20.9 years ago by ▴ 10
0
votes
1
reply
1.2k
views
R: Degradation plots - Affy package
Transcription qPCR Genetics probe affy Transcription qPCR Genetics probe affy
updated 17.6 years ago by ▴ 360 • written 17.6 years ago by ▴ 10
0
votes
1
reply
1.2k
views
ReadAffy problems
Genetics Biophysics affy Genetics Biophysics affy
updated 21.0 years ago by ★ 2.3k • written 21.0 years ago by ▴ 30
0
votes
1
reply
2.0k
views
estimateDispersions in DESeq
Genetics graph DESeq Genetics graph DESeq
updated 11.8 years ago by ★ 13k • written 11.8 years ago by ▴ 10
0
votes
1
reply
941
views
getBioC problem: reposTools
Genetics reposTools Genetics reposTools
updated 21.1 years ago by ★ 3.9k • written 21.1 years ago by ▴ 1000
0
votes
1
reply
899
views
Help to analyse a complex experiment
Genetics Normalization vsn limma Genetics Normalization vsn limma
updated 18.2 years ago by ★ 6.0k • written 18.2 years ago by ▴ 770
0
votes
1
reply
1.2k
views
Problem with ljava when I run update.packages2
Genetics RMAGEML Genetics RMAGEML
updated 18.3 years ago by 25k • written 18.3 years ago by ▴ 770
0
votes
3
replies
1.4k
views
[TimeCourse Package] Warnings message
Genetics TimeCourse timecourse Genetics TimeCourse timecourse
updated 18.3 years ago by ▴ 440 • written 18.3 years ago by ▴ 770
50 results • Page 1 of 1
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Answer: Error retrieving ensembl gene id using biomaRt... by Mike Smith ★ 6.5k
I think you have the assignment operator (`<-`) the wrong way round. It should be `df_biomrt_tmp <- getBM(...`
Answer: Error retrieving ensembl gene id using biomaRt... by James W. MacDonald 65k
I can't reproduce. ``` > library(biomaRt) Warning message: package 'biomaRt' was built under R version 4.3.2 > library(org.Hs.eg.db…
Comment: DESeq2 setting significant p-value by Michael Love 41k
``` > counts <- matrix(1:16, ncol=4, dimnames=list(letters[1:4],NULL)) > coldata <- data.frame(x=1:4) > DESeqDataSetFromMatrix(counts, cold…
Comment: DESeq filtering specific to contrasts by Michael Love 41k
Right, I was suggesting subsetting as a valid choice for "treatment and control samples at each timepoint"
Comment: DESeq filtering specific to contrasts by Carlin95 • 0
Fair enough, I guess it depends on the comparison being made, right? If one was interested in a feature comparing Timepoint A vs B, then it…
Votes
Install/Switch between multiple versions of R, Rstudio, and Bioconductor
A: Docker container with bioconductor and devtools
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
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