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3
votes
4
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277
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R session aborted: prcomp
Biobase stats
updated 3 months ago by 3.2k • written 4 months ago by • 0
0
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0
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105
views
Job: Cancer Bioinformatician @ University of East Anglia - Norwich Medical School, UK
cancer postdoc biomarkers Biobase
4 months ago Daniel Brewer ▴ 90
0
votes
0
replies
157
views
Job: Senior Research Associate in Bioinformatics @ University of East Anglia - Norwich Medical School, UK
Biobase bioinformatics biomarkers cancer
7 months ago Daniel Brewer ▴ 90
0
votes
3
replies
266
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 7 months ago by 57k • written 7 months ago by • 0
0
votes
0
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132
views
Job: Postdoctoral Associate position to study hematopoietic neoplasms using advanced single-cell multi-omics technologies
Biobase
7 months ago NamLab • 0
0
votes
0
replies
141
views
Job: Data analyst position to study hematopoietic neoplasms via single-cell multi-omics
Biobase
7 months ago NamLab • 0
0
votes
1
reply
147
views
Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
updated 7 months ago by 57k • written 7 months ago by • 0
1
vote
0
replies
145
views
Job: Computational Biologist at Denali Therapeutics
Biobase biomarker neuroscience biotech
7 months ago sandmann.t ▴ 70
1
vote
3
replies
268
views
After the Support Site upgrade: how can I order posts by creation (not reply) time?
SupportSiteUI Biobase
9 months ago Axel Klenk ▴ 980
4
votes
8
replies
319
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
updated 15 months ago by 43k • written 15 months ago by • 0
0
votes
0
replies
118
views
No methods found in package Biobase for request: read.AnnotatedDataFrame
software error biobase Iranges ArrayExpressHTS
17 months ago Ed Siefker ▴ 230
0
votes
3
replies
467
views
When applying rma to featureset get error: 'package' must be of length 1
oligo biobase GEOquery
updated 21 months ago by 57k • written 21 months ago by • 0
3
votes
3
replies
507
views
Is there a way to save and open an expression set?
biobase
updated 21 months ago by 3.2k • written 21 months ago by • 0
0
votes
5
replies
741
views
Install a custom CDF file
makecdf RMA annotation biobase GEOquery
updated 2.0 years ago by 57k • written 2.0 years ago by • 0
2
votes
4
replies
1.2k
views
error: namespace Loading DESeq2
deseq2 error namespace biobase
updated 2.6 years ago by 57k • written 2.6 years ago by • 0
0
votes
2
replies
442
views
GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
2.7 years ago cschot3 • 0
4
votes
8
replies
1.3k
views
ALL dataset, correct syntax using the exprs call?
ALL bioconductor biobase exprs
updated 3.0 years ago by 25k • written 3.0 years ago by • 0
2
votes
2
replies
512
views
aaMap Import "Not Available"
bioconductor biobase aaMap
updated 3.0 years ago by ▴ 20 • written 3.0 years ago by • 0
5
votes
7
replies
599
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 3.0 years ago by 25k • written 3.0 years ago by ▴ 20
2
votes
2
replies
2.3k
views
AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
6.7 years ago • updated 3.0 years ago nonCodingGene ▴ 10
2
votes
10
replies
676
views
Am I on the right tracks with a 3 factor design in Limma?
r limma design matrix biobase
updated 3.1 years ago by 43k • written 3.1 years ago by • 0
2
votes
2
replies
595
views
Error in log2(exprs(eSet)) : non-numeric argument to mathematical function
microarray biobase
3.1 years ago charlesgwellem ▴ 10
8
votes
2
replies
1.3k
views
exprs function - clash with dplyr
exprs dplyr Biobase
3.2 years ago Wolfgang Huber 13k
1
vote
3
replies
629
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 3.7 years ago by ★ 27k • written 3.7 years ago by ▴ 20
2
votes
3
replies
1.0k
views
GEOquery problem in calling the function in Rstudio
R software error biobase geoquery
updated 4.0 years ago by 57k • written 4.0 years ago by • 0
4
votes
3
replies
611
views
How to set custom Brainarray annotation for Biobase ExpressionSet object?
affymetrix microarrays expressionset biobase annotation brainarray
updated 4.0 years ago by 57k • written 4.0 years ago by • 0
0
votes
1
reply
615
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 4.2 years ago by 57k • written 4.2 years ago by ▴ 60
1
vote
2
replies
1.8k
views
how to update feature data with different dimensions in expressionSet?
biobase eSet expressionSet
updated 4.7 years ago by 25k • written 4.7 years ago by ★ 3.0k
6
votes
13
replies
1.0k
views
Comparison of Column of AnnotatedDataFrame
biobase AnnotatedDataFrame
4.8 years ago Dario Strbenac ★ 1.5k
0
votes
4
replies
637
views
`exprs<-` Allows setting assay data matrix size that doesn't match se.exprs
Biobase
updated 4.9 years ago by 6.5k • written 4.9 years ago by • 0
1
vote
2
replies
1.4k
views
making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase convert sva ringo arrayqualitymetrics
updated 5.4 years ago by 43k • written 5.4 years ago by • 0
2
votes
2
replies
5.3k
views
Convert Expression Set into a Matrix or Data Frame
microarray biobase affy R
updated 5.5 years ago by ▴ 760 • written 5.5 years ago by • 0
0
votes
2
replies
879
views
Help with annotating eset (Affy Arrays)
Biobase annotationdbi affy microarray
5.7 years ago rumroses12 • 0
2
votes
5
replies
2.8k
views
How to use t.test to select best features out of multiple features?
microarray biobase feature selection t.test R
updated 5.9 years ago by ▴ 780 • written 5.9 years ago by ▴ 10
1
vote
3
replies
1.9k
views
How to use expression set object to select genes using different gene selection methods
microarray biobase geoquery
updated 5.9 years ago by ▴ 780 • written 5.9 years ago by ▴ 10
0
votes
1
reply
2.1k
views
Excluding columns of phenoData of ExpressionSet Data in R
microarray biobase expresiondataset r
5.9 years ago floodking • 0
0
votes
1
reply
4.9k
views
pvca error (Error in Data$variables : $ operator is invalid for atomic vectors)
pvca biobase
updated 6.0 years ago by • 0 • written 6.3 years ago by • 0
4
votes
6
replies
3.4k
views
Proper way to build phenoData object?
limma affy biobase
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by • 0
1
vote
3
replies
1.6k
views
Error installing Biobase on R 3.1.2
biobase
updated 6.5 years ago by ★ 1.9k • written 6.5 years ago by • 0
0
votes
2
replies
691
views
How to Represent Data from Various Different Assays in a Single Class?
biobase
updated 6.6 years ago by 1.1k • written 6.6 years ago by ▴ 20
0
votes
3
replies
920
views
conflict in names between phenoData and protocolData during RMA
biobase
6.7 years ago bin.shan • 0
0
votes
0
replies
925
views
easyRNASeq: Number of total counts
GeneExpression RNASeq Genetics Coverage Normalization BSgenome Biobase Biostrings biomaRt
7.3 years ago Guest User ★ 12k
0
votes
2
replies
1.4k
views
make.cdf.package Error in copySubstitute
GO cdf Biobase affy GO cdf Biobase affy
updated 7.3 years ago by 57k • written 7.3 years ago by ▴ 30
0
votes
0
replies
549
views
Problem with the oligo package for nimblegen analysis
Biobase Biobase
7.7 years ago William Oldham ▴ 10
0
votes
1
reply
1.2k
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 7.8 years ago by ▴ 190 • written 7.8 years ago by 57k
0
votes
2
replies
1.9k
views
Biobase - Error: ExpressionSet
Microarray Annotation GO ExperimentData Biobase Microarray Annotation GO ExperimentData
updated 7.8 years ago by 1.5k • written 7.8 years ago by ▴ 50
0
votes
5
replies
767
views
multiple annotations with get()?
Biobase annotate convert Biobase annotate convert
updated 7.8 years ago by 21k • written 7.8 years ago by ▴ 230
0
votes
4
replies
16k
views
Unable to find an inherited method for function ‘exprs’
Biobase GEOquery virtualArray Biobase GEOquery virtualArray
updated 8.0 years ago by 13k • written 8.0 years ago by ▴ 210
0
votes
2
replies
1.8k
views
[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
updated 8.3 years ago by 25k • written 8.3 years ago by ▴ 30
0
votes
2
replies
1.7k
views
[R] Error in setMethod("combine"... was - Error when installing globaltest package
Infrastructure Cancer Biobase tkWidgets globaltest BiocInstaller BiocGenerics Cancer
updated 8.3 years ago by 25k • written 8.3 years ago by ▴ 40
50 results • Page 1 of 1
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Comment: Best practice for quantifying sncRNA by Abhishek • 0
I wonder what would be a good metric to assess the quantification quality
Comment: Best practice for quantifying sncRNA by Abhishek • 0
Thank you for sharing your thoughts. I used Salmon and indexed using hg38 gencodes transcriptome. After the tximport step, I ended up gett…
Comment: DESeq2 question: why I got discrepancy results for DEGs when using different way by Ming ▴ 350
Thx so much for the diagnosis and advice. Indeed, in my data, some genes have all 0 for all sampes of a contrast for both "Mut" and "WT" gr…
Comment: Best practice for quantifying sncRNA by Steve Lianoglou 13k
> It's my opinion that miRNA is a mirage intended to make MDs salivate and biostatisticians wail in misery, but what do I know? I'll tell …
Comment: Idea: Using DESeq2 to test a change in ratio of two genes by Michael Love 33k
Yes, it's true that we take the reference gene(s) as a noise free measurement of the reference variation with this approach, and control ag…
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Comment: Idea: Using DESeq2 to test a change in ratio of two genes
Time Series Analysis
Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels
Comment: Time series DE gene analysis with edgeR where specific timepoints have NA levels
Answer: Time series DE gene analysis with edgeR where specific timepoints have NA levels
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