Showing : biobase • reset
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Job: Senior Research Associate in Bioinformatics @ University of East Anglia - Norwich Medical School, UK
Biobase bioinformatics biomarkers cancer
4 weeks ago Daniel Brewer • 80
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3
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98
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ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
4 weeks ago bastien_chassagnol • 0 • updated 25 days ago James W. MacDonald 55k
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Job: Postdoctoral Associate position to study hematopoietic neoplasms using advanced single-cell multi-omics technologies
Biobase
4 weeks ago NamLab • 0
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51
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Job: Data analyst position to study hematopoietic neoplasms via single-cell multi-omics
Biobase
4 weeks ago NamLab • 0
0
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1
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63
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Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
6 weeks ago VanessaOak • 0 • updated 6 weeks ago James W. MacDonald 55k
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63
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Job: Computational Biologist at Denali Therapeutics
Biobase biomarker neuroscience biotech
6 weeks ago sandmann.t • 70
1
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3
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151
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After the Support Site upgrade: how can I order posts by creation (not reply) time?
SupportSiteUI Biobase
12 weeks ago Axel Klenk • 940
4
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8
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138
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Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
8 months ago sa825 • 0 • updated 8 months ago Gordon Smyth 41k
0
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51
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No methods found in package Biobase for request: read.AnnotatedDataFrame
software error biobase Iranges ArrayExpressHTS
10 months ago Ed Siefker • 230
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3
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234
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When applying rma to featureset get error: 'package' must be of length 1
oligo biobase GEOquery
14 months ago salamandra • 0 • updated 14 months ago James W. MacDonald 55k
3
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3
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297
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Is there a way to save and open an expression set?
biobase
14 months ago salamandra • 0 • updated 14 months ago Kevin Blighe 2.3k
0
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5
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514
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Install a custom CDF file
makecdf RMA annotation biobase GEOquery
18 months ago Seymoo • 0 • updated 18 months ago James W. MacDonald 55k
2
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4
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1.0k
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error: namespace Loading DESeq2
deseq2 error namespace biobase
2.1 years ago jpcourneya • 0 • updated 2.1 years ago James W. MacDonald 55k
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2
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330
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GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
2.1 years ago cschot3 • 0
4
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8
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1.2k
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ALL dataset, correct syntax using the exprs call?
ALL bioconductor biobase exprs
2.5 years ago detroit.drive • 0 • updated 2.5 years ago Martin Morgan 25k
2
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2
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409
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aaMap Import "Not Available"
bioconductor biobase aaMap
2.5 years ago detroit.drive • 0 • updated 2.5 years ago rreck • 20
5
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7
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490
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Difficulty extending ExpressionSet
biobase expressionset eset
2.5 years ago andrew.birnberg • 20 • updated 2.5 years ago Martin Morgan 25k
2
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2
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2.1k
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AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
6.2 years ago • updated 2.5 years ago nonCodingGene • 10
2
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10
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563
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Am I on the right tracks with a 3 factor design in Limma?
r limma design matrix biobase
2.5 years ago reubenmcgregor88 • 0 • updated 2.5 years ago Gordon Smyth 41k
2
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2
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424
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Error in log2(exprs(eSet)) : non-numeric argument to mathematical function
microarray biobase
2.6 years ago charlesgwellem • 10
8
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2
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1.0k
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exprs function - clash with dplyr
exprs dplyr Biobase
2.7 years ago Wolfgang Huber 13k
1
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3
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538
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Boxplot and Identification of DEG
limma biobase geoquery
3.2 years ago nia • 20 • updated 3.2 years ago Aaron Lun ♦ 26k
2
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3
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941
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GEOquery problem in calling the function in Rstudio
R software error biobase geoquery
3.5 years ago jemaatita • 0 • updated 3.5 years ago James W. MacDonald 55k
4
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3
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542
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How to set custom Brainarray annotation for Biobase ExpressionSet object?
affymetrix microarrays expressionset biobase annotation brainarray
3.5 years ago lykhenko.olexandr • 0 • updated 3.5 years ago James W. MacDonald 55k
0
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1
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561
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Problem Subsetting ExpressionSet
expressionset biobase bioconductor
3.7 years ago Tom Oates • 60 • updated 3.7 years ago James W. MacDonald 55k
1
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2
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1.6k
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how to update feature data with different dimensions in expressionSet?
biobase eSet expressionSet
4.2 years ago Guido Hooiveld ♦ 2.8k • updated 4.2 years ago Martin Morgan 25k
6
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13
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811
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Comparison of Column of AnnotatedDataFrame
biobase AnnotatedDataFrame
4.3 years ago Dario Strbenac ♦ 1.5k
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4
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561
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`exprs<-` Allows setting assay data matrix size that doesn't match se.exprs
Biobase
4.4 years ago psmirnov2000 • 0 • updated 4.4 years ago Kasper Daniel Hansen 6.5k
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making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase convert sva ringo arrayqualitymetrics
4.9 years ago chris.rock • 0 • updated 4.8 years ago Gordon Smyth 41k
2
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2
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4.8k
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Convert Expression Set into a Matrix or Data Frame
microarray biobase affy R
5.0 years ago hshabbeer.09 • 0 • updated 5.0 years ago Diego Diez • 750
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2
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793
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Help with annotating eset (Affy Arrays)
Biobase annotationdbi affy microarray
5.2 years ago rumroses12 • 0
2
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5
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2.7k
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How to use t.test to select best features out of multiple features?
microarray biobase feature selection t.test R
5.3 years ago babumanish837 • 10 • updated 5.3 years ago svlachavas • 770
1
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3
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1.7k
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How to use expression set object to select genes using different gene selection methods
microarray biobase geoquery
5.4 years ago babumanish837 • 10 • updated 5.4 years ago svlachavas • 770
0
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1
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1.9k
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Excluding columns of phenoData of ExpressionSet Data in R
microarray biobase expresiondataset r
5.4 years ago floodking • 0
0
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1
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4.7k
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pvca error (Error in Data$variables : $ operator is invalid for atomic vectors)
pvca biobase
5.7 years ago a.riedel • 0 • updated 5.4 years ago erflynn • 0
4
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6
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3.1k
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Proper way to build phenoData object?
limma affy biobase
5.9 years ago chandlerjd58 • 0 • updated 5.9 years ago Guido Hooiveld ♦ 2.8k
1
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3
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1.5k
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Error installing Biobase on R 3.1.2
biobase
6.0 years ago yannick.lippi • 0 • updated 6.0 years ago Johannes Rainer ♦ 1.7k
0
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2
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608
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How to Represent Data from Various Different Assays in a Single Class?
biobase
6.1 years ago cannin • 20 • updated 6.1 years ago Levi Waldron 1.1k
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3
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855
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conflict in names between phenoData and protocolData during RMA
biobase
6.2 years ago bin.shan • 0
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0
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860
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easyRNASeq: Number of total counts
GeneExpression RNASeq Genetics Coverage Normalization BSgenome Biobase Biostrings biomaRt
6.8 years ago Guest User ♦ 12k
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2
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1.3k
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make.cdf.package Error in copySubstitute
GO cdf Biobase affy GO cdf Biobase affy
6.8 years ago matthew vitalone • 30 • updated 6.8 years ago James W. MacDonald 55k
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499
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Problem with the oligo package for nimblegen analysis
Biobase Biobase
7.2 years ago William Oldham • 10
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1
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1.0k
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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
7.2 years ago James W. MacDonald 55k • updated 7.2 years ago Pekka Kohonen • 190
0
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2
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1.8k
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Biobase - Error: ExpressionSet
Microarray Annotation GO ExperimentData Biobase Microarray Annotation GO ExperimentData
7.3 years ago Lisa Cohen • 50 • updated 7.3 years ago Laurent Gatto 1.4k
0
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5
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697
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multiple annotations with get()?
Biobase annotate convert Biobase annotate convert
7.3 years ago Ed Siefker • 230 • updated 7.3 years ago Sean Davis 21k
0
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4
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15k
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Unable to find an inherited method for function ‘exprs’
Biobase GEOquery virtualArray Biobase GEOquery virtualArray
7.4 years ago Dave Tang • 210 • updated 7.4 years ago Wolfgang Huber 13k
0
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2
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1.7k
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[R] Select single probe-set with median expression from multiple probe-sets corresponding to same gene -AFFY
GO probe Biobase genefilter GO probe Biobase genefilter
7.8 years ago Atul Kakrana • 30 • updated 7.8 years ago Martin Morgan 25k
0
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2
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1.5k
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[R] Error in setMethod("combine"... was - Error when installing globaltest package
Infrastructure Cancer Biobase tkWidgets globaltest BiocInstaller BiocGenerics Cancer
7.8 years ago Shields, Rusty IMS • 40 • updated 7.8 years ago Martin Morgan 25k
0
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9
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562
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make check with Biobase 2.18.0
Biobase Biobase
7.9 years ago Nigel Horne • 40 • updated 7.9 years ago Dan Tenenbaum ♦ 8.2k
0
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2
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1.0k
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GSEABase error parsing msigdb_v3.1.xml
GO Infrastructure hgu95av2 Biobase annotate graph Category AnnotationDbi BiocGenerics GO
8.0 years ago Lina Hultin-Rosenberg • 80 • updated 8.0 years ago Martin Morgan 25k
275 results • Page 1 of 6
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Comment: DESeq2 Error: ncol(countData) == nrow(colData) is not TRUE by Pedram • 0
Hello Michael I could not make the same matrix although I did what you said
Comment: Replace a specific nucleotide sequence, at a specific position, with another in by Konstantinos Yeles • 40
Hello @Benjamin-24571 for your example, I can suggest you this code: Read <- c("1","2","3","4") Sequences <- c("ACACCCACG", "AA…
Comment: CHIP Seq Analysis by DiffBind Package by shrinka.genetics • 0
Hello Thanks for your reply. I changed my file format and now it ran. It gave one plot also. All file s are in same directory. No…
Answer: Installing Bioconductor packages in Docker by Konstantinos Yeles • 40
Hello, @adklts-21974 My way to do the installation of packages in a docker is like this: FROM bioconductor/bioconductor_docker…
Comment: HTqPCR: dealing with technical replicates (filterCategory) and inability to anal by larissa.stanberry • 0
I ran into the same issue. It appears that filtering does not carry over featureData with the exception of featureNames, e.g. call featureD…
Votes
A: single-cells RNA-seq analysis by MAST with unbalanced group size
single-cells RNA-seq analysis by MAST with unbalanced group size
A: single-cells RNA-seq analysis by MAST with unbalanced group size
A: DESeq2 1.20.0 lfcshrink function
DEXSeq Usage and Expression Confusion
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