Showing : biobase • reset
8
votes
2
replies
3.0k
views
exprs function - clash with dplyr
exprs dplyr Biobase
6.0 years ago Wolfgang Huber ★ 13k
6
votes
13
replies
2.0k
views
Comparison of Column of AnnotatedDataFrame
biobase AnnotatedDataFrame
7.6 years ago Dario Strbenac ★ 1.5k
5
votes
7
replies
1.5k
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 5.8 years ago by 25k • written 5.8 years ago by ▴ 20
4
votes
6
replies
5.2k
views
Proper way to build phenoData object?
limma affy biobase
updated 9.2 years ago by ★ 3.9k • written 9.2 years ago by ▴ 10
4
votes
3
replies
1.2k
views
How to set custom Brainarray annotation for Biobase ExpressionSet object?
affymetrix microarrays expressionset biobase annotation brainarray
updated 6.8 years ago by 65k • written 6.8 years ago by • 0
4
votes
8
replies
2.3k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
updated 4.0 years ago by 50k • written 4.0 years ago by • 0
4
votes
8
replies
2.3k
views
ALL dataset, correct syntax using the exprs call?
ALL bioconductor biobase exprs
updated 5.8 years ago by 25k • written 5.8 years ago by • 0
3
votes
3
replies
1.8k
views
Is there a way to save and open an expression set?
biobase
updated 4.5 years ago by ★ 3.9k • written 4.5 years ago by ▴ 20
3
votes
3
replies
210
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array BiocGenerics BiocParallel Biobase
24 days ago • updated 18 days ago jacques.imbert • 0
3
votes
4
replies
2.1k
views
R session aborted: prcomp
Biobase stats
updated 3.1 years ago by ★ 3.9k • written 3.1 years ago by • 0
2
votes
3
replies
1.7k
views
GEOquery problem in calling the function in Rstudio
R software error biobase geoquery
updated 6.8 years ago by 65k • written 6.8 years ago by • 0
2
votes
4
replies
1.4k
views
Failed to install Biobase
GSVA Biobase
updated 13 months ago by 65k • written 13 months ago by • 0
2
votes
10
replies
1.8k
views
Am I on the right tracks with a 3 factor design in Limma?
r limma design matrix biobase
updated 5.8 years ago by 50k • written 5.8 years ago by • 0
2
votes
2
replies
7.9k
views
Convert Expression Set into a Matrix or Data Frame
microarray biobase affy R
updated 8.3 years ago by ▴ 760 • written 8.3 years ago by • 0
2
votes
3
replies
2.0k
views
Suppress messages from ALL calls to load package
suppressPackageStartupMessages Biobase
updated 2.4 years ago by ★ 4.1k • written 2.4 years ago by ▴ 210
2
votes
2
replies
4.4k
views
AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
9.5 years ago • updated 5.8 years ago nonCodingGene ▴ 10
2
votes
1
reply
1.7k
views
Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase SingleCellData seurat SingleCell
updated 2.3 years ago by 65k • written 2.3 years ago by • 0
2
votes
4
replies
2.5k
views
error: namespace Loading DESeq2
deseq2 error namespace biobase
updated 5.4 years ago by 65k • written 5.4 years ago by • 0
2
votes
2
replies
1.2k
views
aaMap Import "Not Available"
bioconductor biobase aaMap
updated 5.8 years ago by ▴ 20 • written 5.8 years ago by • 0
2
votes
0
replies
623
views
PREDA shiny Golem issue
PREDAsampledata PREDA Biobase
2.5 years ago Gavin ▴ 20
2
votes
2
replies
2.4k
views
Error in log2(exprs(eSet)) : non-numeric argument to mathematical function
microarray biobase
5.9 years ago charlesgwellem ▴ 10
2
votes
5
replies
3.8k
views
How to use t.test to select best features out of multiple features?
microarray biobase feature selection t.test R
updated 8.6 years ago by ▴ 830 • written 8.6 years ago by ▴ 10
1
vote
4
replies
606
views
Help for SeqVarData function
Biobase SeqVarTools
8 months ago pjuge • 0
1
vote
0
replies
799
views
Job: Computational Biologist at Denali Therapeutics
Biobase biomarker neuroscience biotech
3.4 years ago sandmann.t ▴ 70
1
vote
3
replies
894
views
After the Support Site upgrade: how can I order posts by creation (not reply) time?
SupportSiteUI Biobase
3.5 years ago Axel Klenk ★ 1.0k
1
vote
3
replies
1.5k
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 6.5 years ago by ★ 28k • written 6.5 years ago by ▴ 30
1
vote
2
replies
3.0k
views
how to update feature data with different dimensions in expressionSet?
biobase eSet expressionSet
updated 7.5 years ago by 25k • written 7.5 years ago by ★ 3.9k
1
vote
3
replies
3.1k
views
How to use expression set object to select genes using different gene selection methods
microarray biobase geoquery
updated 8.7 years ago by ▴ 830 • written 8.7 years ago by ▴ 10
1
vote
3
replies
2.4k
views
Error installing Biobase on R 3.1.2
biobase
updated 9.3 years ago by ★ 2.0k • written 9.3 years ago by • 0
1
vote
2
replies
2.5k
views
making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase convert sva ringo arrayqualitymetrics
updated 8.1 years ago by 50k • written 8.2 years ago by • 0
0
votes
1
reply
1.1k
views
New Package: annaffy
Annotation GO rgu34a probe Biobase annaffy Annotation GO rgu34a probe Biobase annaffy
updated 21.8 years ago by ★ 2.3k • written 21.8 years ago by ▴ 20
0
votes
0
replies
896
views
Re: PDF files
Microarray Cancer Biobase affy Microarray Cancer Biobase affy
21.9 years ago Laurent Gautier ★ 2.3k
0
votes
4
replies
864
views
Problem with invalid GO term in HyperGResult object - NOT solved
GO Biobase GO Biobase
updated 16.6 years ago by 65k • written 16.6 years ago by 25k
0
votes
1
reply
1.6k
views
Problems with url/download and http_proxy
Biobase annotate edd geneplotter tkWidgets ASSIGN Biobase annotate edd geneplotter
updated 21.9 years ago by ▴ 50 • written 21.9 years ago by ▴ 460
0
votes
2
replies
1.1k
views
Web site suggestions
Biobase edd ROC Biobase edd ROC
21.9 years ago Warnes, Gregory R ▴ 460
0
votes
1
reply
902
views
Error in .nextMethod(e1, e2) working with R2.0. in Windows
Microarray Biobase Microarray Biobase
16.7 years ago Martin Morgan 25k
0
votes
0
replies
1.2k
views
Error in xval: No Direct or Inherited Method for this call
Survival Biobase genefilter MLInterfaces Survival Biobase genefilter MLInterfaces
17.6 years ago Martin Morgan 25k
0
votes
1
reply
930
views
installation problems
Biobase Biobase
updated 21.9 years ago by ★ 2.3k • written 21.9 years ago by ▴ 120
0
votes
1
reply
1.1k
views
biobase
Biobase affy Biobase affy
updated 22.0 years ago by ▴ 150 • written 22.0 years ago by ▴ 70
0
votes
0
replies
1.0k
views
Does anyone have the same problem with new("ExpressionSet", ...) ?
Annotation Biobase Annotation Biobase
16.7 years ago Martin Morgan 25k
0
votes
1
reply
1.0k
views
Biobase version 1.0 on windows XP...
Biobase Biobase
updated 22.0 years ago by ▴ 530 • written 22.0 years ago by ▴ 90
0
votes
0
replies
1.5k
views
peer review process/DATE CORRECTION
Biobase annotate edd genefilter geneplotter rhdf5 multtest ROC tkWidgets affy AnnBuilder
22.1 years ago Vincent J. Carey, Jr. 6.7k
0
votes
9
replies
1.8k
views
problem with duplicateCorrelation and ExpressionSet objects
GO Survival cdf Biobase graph limma gcrma annaffy affyPLM simpleaffy biomaRt Category
updated 17.0 years ago by ★ 7.4k • written 17.0 years ago by ★ 2.2k
0
votes
4
replies
1.1k
views
Communicating gene-probe relationships to sam
SNP Biobase siggenes SNP Biobase siggenes
18.0 years ago Charles Crane ▴ 30
0
votes
0
replies
849
views
ABPkgBuilder Error; Again
Annotation GO Cancer Organism Biobase annotate AnnBuilder PROcess Annotation GO Cancer
18.7 years ago Barry Henderson ▴ 250
0
votes
1
reply
1.1k
views
Problems accessing the Milan package through the vignettes Explorer
Cancer Biobase annotate edd geneplotter multtest tkWidgets affydata vsn graph hexbin
updated 20.9 years ago by ★ 2.9k • written 20.9 years ago by ▴ 130
0
votes
1
reply
657
views
Biobase/reposTools Dependency
Biobase reposTools Biobase reposTools
updated 20.9 years ago by ★ 5.5k • written 20.9 years ago by ▴ 220
0
votes
0
replies
855
views
Error Installation for Genefilter
Biobase genefilter Biobase genefilter
20.9 years ago Lisa Devereaux ▴ 20
0
votes
1
reply
789
views
Problems
Biobase reposTools Biobase reposTools
updated 20.9 years ago by ★ 5.5k • written 20.9 years ago by ▴ 10
0
votes
1
reply
794
views
Difficulty in installing Biobase 1.3.22
GO Biobase GO Biobase
updated 20.9 years ago by ★ 3.9k • written 20.9 years ago by ▴ 10
50 results • Page 1 of 1
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Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Hervé Pagès 16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea() by James W. MacDonald 65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea() by Chris • 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
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