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3
votes
7
replies
2.4k
views
Installing densvis on a Singularity container
densvis docker
updated 21 months ago by ▴ 160 • written 22 months ago by 68k
1
vote
2
replies
694
views
Difference in mixed test for fry vs mroast
limma
updated 3.7 years ago by 52k • written 3.7 years ago by 68k
2
votes
1
reply
1.3k
views
Iterating over BAM file by genomic chunk
GenomicAlignments
updated 6.0 years ago by 25k • written 6.0 years ago by 68k
0
votes
3
replies
747
views
Invalid result from biomaRt
biomaRt
6.2 years ago James W. MacDonald 68k
0
votes
2
replies
944
views
Pre-processing for diffHiC
diffHiC
updated 6.4 years ago by ★ 28k • written 6.4 years ago by 68k
1
vote
3
replies
1.1k
views
Problems with Organism.dplyr
organism.dplyr
updated 6.6 years ago by 25k • written 6.6 years ago by 68k
0
votes
2
replies
1.8k
views
ComplexHeatmap column dendrogram
complexheatmap
updated 7.0 years ago by ▴ 200 • written 7.0 years ago by 68k
1
vote
1
reply
1.2k
views
Treat p > 1
edgeR glmTreat
updated 8.8 years ago by ▴ 900 • written 8.8 years ago by 68k
2
votes
9
replies
3.8k
views
GEOquery error
Annotation PROcess Annotation PROcess
updated 9.0 years ago by 6.7k • written 10.9 years ago by 68k
5
votes
2
replies
3.6k
views
Saving/loading TxDb objects
genomicfeatures
updated 9.8 years ago by 25k • written 9.8 years ago by 68k
0
votes
4
replies
2.0k
views
keepStandardChromosomes doesn't respect ordering
genomeinfodb
updated 10.4 years ago by ▴ 390 • written 10.4 years ago by 68k
1
vote
4
replies
2.1k
views
Consensus sequence
Organism
updated 10.5 years ago by 16k • written 10.5 years ago by 68k
0
votes
1
reply
1.1k
views
Model Design
limma edgeR
updated 10.5 years ago by ▴ 10 • written 10.5 years ago by 68k
0
votes
4
replies
1.9k
views
error with makecdfenv package
Annotation cdf makecdfenv oligo xps Annotation cdf makecdfenv oligo xps
updated 10.7 years ago by ★ 3.9k • written 10.7 years ago by 68k
0
votes
0
replies
1.3k
views
ggbio plot coverage adjusted for library size
Coverage Coverage
10.7 years ago James W. MacDonald 68k
0
votes
5
replies
2.9k
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 10.7 years ago by ▴ 160 • written 10.8 years ago by 68k
0
votes
2
replies
1.9k
views
makecdfenv package bug
cdf affy affxparser oligo cdf affy affxparser oligo
updated 10.8 years ago by ▴ 10 • written 10.8 years ago by 68k
0
votes
6
replies
1.8k
views
Package "makecdfenv"
cdf cdf
10.8 years ago James W. MacDonald 68k
0
votes
0
replies
1.2k
views
rcModelMedianPolish of the package preprocessCore/ imitate median polish of RMA
Normalization GO probe PROcess Normalization GO probe PROcess
11.0 years ago James W. MacDonald 68k
0
votes
0
replies
931
views
Multifactorial edgeR GLM design question (contrast that I should make)
Normalization Normalization
11.1 years ago James W. MacDonald 68k
0
votes
0
replies
1.7k
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
11.2 years ago James W. MacDonald 68k
0
votes
1
reply
991
views
AnnotationHub resource down?
GO GO
updated 11.4 years ago by ★ 8.2k • written 11.4 years ago by 68k
0
votes
1
reply
2.0k
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 11.4 years ago by ▴ 190 • written 11.4 years ago by 68k
0
votes
3
replies
1.3k
views
Rsubread featureCounts question
GO GO
updated 11.4 years ago by ★ 3.6k • written 11.4 years ago by 68k
0
votes
0
replies
1.2k
views
Rsubread segfault
Annotation PROcess Rsubread Annotation PROcess Rsubread
11.4 years ago James W. MacDonald 68k
0
votes
0
replies
2.7k
views
Importing quantile normalized .txt file to limma for differential expression
Normalization affy limma oligo xps Normalization affy limma oligo xps
11.5 years ago James W. MacDonald 68k
0
votes
0
replies
938
views
an error in is CDFXDA
cdf cdf
11.7 years ago James W. MacDonald 68k
0
votes
1
reply
1.7k
views
problem with 'FDb.InfiniumMethylation.hg19'
BSgenome BSgenome lumi methylumi BSgenome BSgenome lumi methylumi
updated 11.7 years ago by ▴ 120 • written 11.7 years ago by 68k
0
votes
6
replies
1.2k
views
ReportingTools error
probe probe
updated 11.9 years ago by ▴ 160 • written 11.9 years ago by 68k
3
votes
1
reply
1.3k
views
Mass spectrometry data analysis
updated 12.0 years ago by ★ 13k • written 12.0 years ago by 68k
0
votes
0
replies
1.2k
views
faillure in ragene10stv1 in rat Gene St0.1 Affymetrix data
Annotation affy oligo xps Annotation affy oligo xps
12.0 years ago James W. MacDonald 68k
0
votes
1
reply
1.3k
views
Retrieving all entrez identifiers that are annotated in KEGG pathways
GOstats GOstats
updated 12.0 years ago by ▴ 60 • written 12.0 years ago by 68k
0
votes
12
replies
6.8k
views
Have troubles with finding Annotations for Bovine and Rhesus\' platforms
Microarray GO oligo AnnotationForge Microarray GO oligo AnnotationForge
12.1 years ago James W. MacDonald 68k
0
votes
0
replies
798
views
Question about amount of diff expressed genes in fit using a design matrix with intercept
12.3 years ago James W. MacDonald 68k
2
votes
1
reply
2.1k
views
medain global normalize - argument matrix
Normalization GO Normalization GO
updated 12.4 years ago by 52k • written 12.4 years ago by 68k
0
votes
1
reply
841
views
within chip probe replicates, Agilent chips
probe limma probe limma
updated 12.4 years ago by ★ 3.0k • written 12.4 years ago by 68k
0
votes
2
replies
873
views
AnnotationDbi weirdness
updated 12.4 years ago by ★ 7.2k • written 12.4 years ago by 68k
0
votes
3
replies
815
views
summarizeOverlaps question
updated 12.6 years ago by ★ 6.8k • written 12.6 years ago by 68k
0
votes
3
replies
1.2k
views
Antw: Re: limma voom: How to create double contrasts?
Microarray edgeR Microarray edgeR
updated 12.7 years ago by ▴ 40 • written 12.7 years ago by 68k
0
votes
3
replies
2.0k
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 12.9 years ago by ▴ 190 • written 12.9 years ago by 68k
0
votes
0
replies
931
views
[Bioc-devel] technical and biological replicates in the same Exprset - Agi4x44
Microarray Normalization Microarray Normalization
12.9 years ago James W. MacDonald 68k
0
votes
0
replies
879
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
13.1 years ago James W. MacDonald 68k
0
votes
0
replies
1.3k
views
converting intensity values to log ratios?
multtest limma siggenes convert multtest limma siggenes convert
13.1 years ago James W. MacDonald 68k
0
votes
4
replies
721
views
Biocinstall
updated 13.6 years ago by 6.7k • written 13.6 years ago by 68k
0
votes
0
replies
1.4k
views
Some problems in combining ExpressionSet objects with the combine() function
Microarray GO Cancer Colon affy limma Microarray GO Cancer Colon affy limma
13.6 years ago James W. MacDonald 68k
0
votes
0
replies
960
views
Fwd: Unable to install packages
Microarray Annotation cdf probe cycle Microarray Annotation cdf probe cycle
13.7 years ago James W. MacDonald 68k
0
votes
0
replies
773
views
Error from aafGO using yeast2.db
yeast2 yeast2
13.8 years ago James W. MacDonald 68k
0
votes
1
reply
930
views
[R] Make.cdf.package error
cdf cdf
updated 14.1 years ago by ▴ 10 • written 14.1 years ago by 68k
0
votes
1
reply
1.2k
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 14.2 years ago by ▴ 90 • written 14.2 years ago by 68k
0
votes
2
replies
1.5k
views
How do I set the median when performing MAS5.0 normalization
Normalization affy Normalization affy
updated 14.3 years ago by ▴ 60 • written 14.3 years ago by 68k
159 results • Page 1 of 4
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