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3
votes
7
replies
1.8k
views
Installing densvis on a Singularity container
densvis docker
updated 10 months ago by ▴ 160 • written 11 months ago by 65k
1
vote
2
replies
551
views
Difference in mixed test for fry vs mroast
limma
updated 2.8 years ago by 50k • written 2.8 years ago by 65k
2
votes
1
reply
1.0k
views
Iterating over BAM file by genomic chunk
GenomicAlignments
updated 5.0 years ago by 25k • written 5.0 years ago by 65k
0
votes
3
replies
540
views
Invalid result from biomaRt
biomaRt
5.3 years ago James W. MacDonald 65k
0
votes
2
replies
709
views
Pre-processing for diffHiC
diffHiC
updated 5.5 years ago by ★ 28k • written 5.5 years ago by 65k
1
vote
3
replies
819
views
Problems with Organism.dplyr
organism.dplyr
updated 5.7 years ago by 25k • written 5.7 years ago by 65k
0
votes
2
replies
1.6k
views
ComplexHeatmap column dendrogram
complexheatmap
updated 6.1 years ago by ▴ 200 • written 6.1 years ago by 65k
1
vote
1
reply
1000
views
Treat p > 1
edgeR glmTreat
updated 7.8 years ago by ▴ 840 • written 7.9 years ago by 65k
2
votes
9
replies
3.4k
views
GEOquery error
Annotation PROcess Annotation PROcess
updated 8.1 years ago by 6.7k • written 10.0 years ago by 65k
5
votes
2
replies
3.2k
views
Saving/loading TxDb objects
genomicfeatures
updated 8.9 years ago by 25k • written 8.9 years ago by 65k
0
votes
4
replies
1.6k
views
keepStandardChromosomes doesn't respect ordering
genomeinfodb
updated 9.5 years ago by ▴ 390 • written 9.5 years ago by 65k
1
vote
4
replies
1.8k
views
Consensus sequence
Organism
updated 9.6 years ago by 16k • written 9.6 years ago by 65k
0
votes
1
reply
943
views
Model Design
limma edgeR
updated 9.6 years ago by ▴ 10 • written 9.6 years ago by 65k
0
votes
4
replies
1.6k
views
error with makecdfenv package
Annotation cdf makecdfenv oligo xps Annotation cdf makecdfenv oligo xps
updated 9.8 years ago by ★ 3.9k • written 9.8 years ago by 65k
0
votes
0
replies
1.2k
views
ggbio plot coverage adjusted for library size
Coverage Coverage
9.8 years ago James W. MacDonald 65k
0
votes
5
replies
2.6k
views
Issues about how to filter and annotate the MoGene-2_0-st and MoEx-1_0-st-v1 array probe sets
Annotation probe annotate annaffy oligo ReportingTools Annotation probe annotate annaffy
updated 9.8 years ago by ▴ 160 • written 9.9 years ago by 65k
0
votes
2
replies
1.6k
views
makecdfenv package bug
cdf affy affxparser oligo cdf affy affxparser oligo
updated 9.9 years ago by ▴ 10 • written 9.9 years ago by 65k
0
votes
6
replies
1.5k
views
Package "makecdfenv"
cdf cdf
9.9 years ago James W. MacDonald 65k
0
votes
0
replies
1.0k
views
rcModelMedianPolish of the package preprocessCore/ imitate median polish of RMA
Normalization GO probe PROcess Normalization GO probe PROcess
10.1 years ago James W. MacDonald 65k
0
votes
0
replies
769
views
Multifactorial edgeR GLM design question (contrast that I should make)
Normalization Normalization
10.2 years ago James W. MacDonald 65k
0
votes
0
replies
1.5k
views
Missing probesets when creating Affymetrix GeneChip miRNA 4.0 CDF package using makecdfenv package
miRNA cdf affy makecdfenv affxparser miRNA cdf affy makecdfenv affxparser
10.3 years ago James W. MacDonald 65k
0
votes
1
reply
838
views
AnnotationHub resource down?
GO GO
updated 10.5 years ago by ★ 8.2k • written 10.5 years ago by 65k
0
votes
1
reply
1.8k
views
Coercing matrix into expression set, for normalization of only subsets of miRNAs (affy miRNA3.0)
miRNA Normalization GO Biobase affy convert oligo miRNA Normalization GO Biobase affy
updated 10.5 years ago by ▴ 190 • written 10.5 years ago by 65k
0
votes
3
replies
1.1k
views
Rsubread featureCounts question
GO GO
updated 10.5 years ago by ★ 3.6k • written 10.5 years ago by 65k
0
votes
0
replies
1.0k
views
Rsubread segfault
Annotation PROcess Rsubread Annotation PROcess Rsubread
10.5 years ago James W. MacDonald 65k
0
votes
0
replies
2.5k
views
Importing quantile normalized .txt file to limma for differential expression
Normalization affy limma oligo xps Normalization affy limma oligo xps
10.6 years ago James W. MacDonald 65k
0
votes
0
replies
723
views
an error in is CDFXDA
cdf cdf
10.8 years ago James W. MacDonald 65k
0
votes
1
reply
1.4k
views
problem with 'FDb.InfiniumMethylation.hg19'
BSgenome BSgenome lumi methylumi BSgenome BSgenome lumi methylumi
updated 10.8 years ago by ▴ 120 • written 10.8 years ago by 65k
0
votes
6
replies
968
views
ReportingTools error
probe probe
updated 11.0 years ago by ▴ 160 • written 11.0 years ago by 65k
3
votes
1
reply
1.2k
views
Mass spectrometry data analysis
updated 11.0 years ago by ★ 13k • written 11.1 years ago by 65k
0
votes
0
replies
1.0k
views
faillure in ragene10stv1 in rat Gene St0.1 Affymetrix data
Annotation affy oligo xps Annotation affy oligo xps
11.1 years ago James W. MacDonald 65k
0
votes
1
reply
1.1k
views
Retrieving all entrez identifiers that are annotated in KEGG pathways
GOstats GOstats
updated 11.1 years ago by ▴ 60 • written 11.1 years ago by 65k
0
votes
12
replies
5.2k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray GO oligo AnnotationForge Microarray GO oligo AnnotationForge
11.2 years ago James W. MacDonald 65k
0
votes
0
replies
700
views
Question about amount of diff expressed genes in fit using a design matrix with intercept
11.4 years ago James W. MacDonald 65k
2
votes
1
reply
1.8k
views
medain global normalize - argument matrix
Normalization GO Normalization GO
updated 11.5 years ago by 50k • written 11.5 years ago by 65k
0
votes
1
reply
747
views
within chip probe replicates, Agilent chips
probe limma probe limma
updated 11.5 years ago by ★ 3.0k • written 11.5 years ago by 65k
0
votes
2
replies
755
views
AnnotationDbi weirdness
updated 11.5 years ago by ★ 7.2k • written 11.5 years ago by 65k
0
votes
3
replies
693
views
summarizeOverlaps question
updated 11.6 years ago by ★ 6.8k • written 11.6 years ago by 65k
0
votes
3
replies
1.0k
views
Antw: Re: limma voom: How to create double contrasts?
Microarray edgeR Microarray edgeR
updated 11.8 years ago by ▴ 40 • written 11.8 years ago by 65k
0
votes
3
replies
1.8k
views
How can I remove control probesets from the expressionset object in gene expression analysis with Affy Human Gene 1.0ST microarray
Microarray Annotation Normalization GO probe genefilter affy limma oligo Microarray GO
updated 12.0 years ago by ▴ 190 • written 12.0 years ago by 65k
0
votes
0
replies
803
views
[Bioc-devel] technical and biological replicates in the same Exprset - Agi4x44
Microarray Normalization Microarray Normalization
12.0 years ago James W. MacDonald 65k
0
votes
0
replies
686
views
Cross-comparison of independent intensities from different experiments (genepix) (sorry I don\'t know how to describe the problem better)
limma maanova limma maanova
12.2 years ago James W. MacDonald 65k
0
votes
0
replies
1.1k
views
converting intensity values to log ratios?
multtest limma siggenes convert multtest limma siggenes convert
12.2 years ago James W. MacDonald 65k
0
votes
4
replies
604
views
Biocinstall
updated 12.7 years ago by 6.7k • written 12.7 years ago by 65k
0
votes
0
replies
1.2k
views
Some problems in combining ExpressionSet objects with the combine() function
Microarray GO Cancer Colon affy limma Microarray GO Cancer Colon affy limma
12.7 years ago James W. MacDonald 65k
0
votes
0
replies
852
views
Fwd: Unable to install packages
Microarray Annotation cdf probe cycle Microarray Annotation cdf probe cycle
12.8 years ago James W. MacDonald 65k
0
votes
0
replies
655
views
Error from aafGO using yeast2.db
yeast2 yeast2
12.9 years ago James W. MacDonald 65k
0
votes
1
reply
781
views
[R] Make.cdf.package error
cdf cdf
updated 13.2 years ago by ▴ 10 • written 13.2 years ago by 65k
0
votes
1
reply
998
views
question about get a summary gene expression information from the probe set associated with one specific gene
Annotation GO cdf probe affy convert ASSIGN Annotation GO cdf probe affy convert
updated 13.3 years ago by ▴ 90 • written 13.3 years ago by 65k
0
votes
2
replies
1.3k
views
How do I set the median when performing MAS5.0 normalization
Normalization affy Normalization affy
updated 13.4 years ago by ▴ 60 • written 13.4 years ago by 65k
159 results • Page 1 of 4
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