Showing : Biobase • reset
0
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337
views
Job: PhD-position in bioinformatics / computational biology
Epigenomics NGS Aging Biobase
updated 4 months ago by 42k • written 4 months ago by • 0
3
votes
3
replies
640
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array BiocGenerics BiocParallel Biobase
6 months ago jacques.imbert • 0
1
vote
4
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845
views
Help for SeqVarData function
Biobase SeqVarTools
14 months ago pjuge • 0
2
votes
4
replies
1.9k
views
Failed to install Biobase
GSVA Biobase
updated 19 months ago by 67k • written 19 months ago by • 0
0
votes
2
replies
1.3k
views
Automatically disconnecting database connections stored within an S4 object
DBI S4 Biobase
updated 2.2 years ago by 16k • written 2.2 years ago by ▴ 70
0
votes
1
reply
3.9k
views
NMF installation with current R version
NMF Biobase
updated 2.5 years ago by 4.1k • written 2.5 years ago by • 0
2
votes
1
reply
2.0k
views
Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase SingleCellData seurat SingleCell
updated 2.8 years ago by 67k • written 2.8 years ago by • 0
2
votes
3
replies
2.7k
views
Suppress messages from ALL calls to load package
suppressPackageStartupMessages Biobase
updated 2.9 years ago by ★ 4.5k • written 2.9 years ago by ▴ 210
2
votes
0
replies
776
views
PREDA shiny Golem issue
PREDAsampledata PREDA Biobase
3.0 years ago Gavin ▴ 20
0
votes
2
replies
1.2k
views
Gene expression in R
limma edgeR Biobase GeneExpression
3.2 years ago sogol.bouyeh • 0
3
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4
replies
2.4k
views
R session aborted: prcomp
Biobase stats
updated 3.6 years ago by ★ 4.0k • written 3.6 years ago by • 0
0
votes
0
replies
1.0k
views
Job: Cancer Bioinformatician @ University of East Anglia - Norwich Medical School, UK
cancer postdoc biomarkers Biobase
3.6 years ago Daniel Brewer ▴ 100
0
votes
0
replies
1.1k
views
Job: Senior Research Associate in Bioinformatics @ University of East Anglia - Norwich Medical School, UK
Biobase bioinformatics biomarkers cancer
3.9 years ago Daniel Brewer ▴ 100
0
votes
3
replies
1.6k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 3.9 years ago by 67k • written 3.9 years ago by • 0
0
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0
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832
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Job: Postdoctoral Associate position to study hematopoietic neoplasms using advanced single-cell multi-omics technologies
Biobase
3.9 years ago NamLab • 0
0
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0
replies
830
views
Job: Data analyst position to study hematopoietic neoplasms via single-cell multi-omics
Biobase
3.9 years ago NamLab • 0
0
votes
1
reply
858
views
Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
updated 3.9 years ago by 67k • written 3.9 years ago by • 0
1
vote
0
replies
923
views
Job: Computational Biologist at Denali Therapeutics
Biobase biomarker neuroscience biotech
3.9 years ago sandmann.t ▴ 70
1
vote
3
replies
1.1k
views
After the Support Site upgrade: how can I order posts by creation (not reply) time?
SupportSiteUI Biobase
4.0 years ago Axel Klenk ★ 1.0k
4
votes
8
replies
2.7k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
updated 4.5 years ago by 51k • written 4.5 years ago by • 0
0
votes
0
replies
1000
views
No methods found in package Biobase for request: read.AnnotatedDataFrame
software error biobase Iranges ArrayExpressHTS
4.7 years ago Ed Siefker ▴ 230
0
votes
3
replies
1.9k
views
When applying rma to featureset get error: 'package' must be of length 1
oligo biobase GEOquery
updated 5.0 years ago by 67k • written 5.0 years ago by ▴ 20
3
votes
3
replies
2.0k
views
Is there a way to save and open an expression set?
biobase
updated 5.0 years ago by ★ 4.0k • written 5.0 years ago by ▴ 20
0
votes
5
replies
2.4k
views
Install a custom CDF file
makecdf RMA annotation biobase GEOquery
updated 5.3 years ago by 67k • written 5.3 years ago by • 0
2
votes
4
replies
2.7k
views
error: namespace Loading DESeq2
deseq2 error namespace biobase
updated 5.9 years ago by 67k • written 5.9 years ago by • 0
0
votes
2
replies
1.4k
views
GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
5.9 years ago cschot3 • 0
4
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8
replies
2.6k
views
ALL dataset, correct syntax using the exprs call?
ALL bioconductor biobase exprs
updated 6.3 years ago by 25k • written 6.3 years ago by • 0
2
votes
2
replies
1.4k
views
aaMap Import "Not Available"
bioconductor biobase aaMap
updated 6.3 years ago by ▴ 20 • written 6.3 years ago by • 0
5
votes
7
replies
1.7k
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 6.3 years ago by 25k • written 6.3 years ago by ▴ 20
2
votes
2
replies
4.8k
views
AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
10.0 years ago • updated 6.3 years ago nonCodingGene ▴ 10
2
votes
10
replies
2.0k
views
Am I on the right tracks with a 3 factor design in Limma?
r limma design matrix biobase
updated 6.4 years ago by 51k • written 6.4 years ago by • 0
2
votes
2
replies
2.7k
views
Error in log2(exprs(eSet)) : non-numeric argument to mathematical function
microarray biobase
6.4 years ago charlesgwellem ▴ 10
8
votes
2
replies
3.4k
views
exprs function - clash with dplyr
exprs dplyr Biobase
6.5 years ago Wolfgang Huber ★ 13k
1
vote
3
replies
1.7k
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 7.0 years ago by ★ 28k • written 7.0 years ago by ▴ 30
2
votes
3
replies
2.0k
views
GEOquery problem in calling the function in Rstudio
R software error biobase geoquery
updated 7.3 years ago by 67k • written 7.3 years ago by • 0
4
votes
3
replies
1.3k
views
How to set custom Brainarray annotation for Biobase ExpressionSet object?
affymetrix microarrays expressionset biobase annotation brainarray
updated 7.3 years ago by 67k • written 7.3 years ago by • 0
0
votes
1
reply
1.3k
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 7.5 years ago by 67k • written 7.5 years ago by ▴ 60
1
vote
2
replies
3.3k
views
how to update feature data with different dimensions in expressionSet?
biobase eSet expressionSet
updated 8.0 years ago by 25k • written 8.0 years ago by ★ 4.1k
6
votes
13
replies
2.3k
views
Comparison of Column of AnnotatedDataFrame
biobase AnnotatedDataFrame
8.1 years ago Dario Strbenac ★ 1.5k
0
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4
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1.4k
views
`exprs<-` Allows setting assay data matrix size that doesn't match se.exprs
Biobase
updated 8.2 years ago by ★ 6.5k • written 8.2 years ago by • 0
1
vote
2
replies
2.7k
views
making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase convert sva ringo arrayqualitymetrics
updated 8.6 years ago by 51k • written 8.7 years ago by • 0
2
votes
2
replies
8.5k
views
Convert Expression Set into a Matrix or Data Frame
microarray biobase affy R
updated 8.8 years ago by ▴ 760 • written 8.8 years ago by • 0
0
votes
2
replies
1.6k
views
Help with annotating eset (Affy Arrays)
Biobase annotationdbi affy microarray
9.0 years ago rumroses12 • 0
2
votes
5
replies
4.0k
views
How to use t.test to select best features out of multiple features?
microarray biobase feature selection t.test R
updated 9.2 years ago by ▴ 830 • written 9.2 years ago by ▴ 10
1
vote
3
replies
3.3k
views
How to use expression set object to select genes using different gene selection methods
microarray biobase geoquery
updated 9.2 years ago by ▴ 830 • written 9.2 years ago by ▴ 10
0
votes
1
reply
3.3k
views
Excluding columns of phenoData of ExpressionSet Data in R
microarray biobase expresiondataset r
9.2 years ago floodking • 0
0
votes
1
reply
5.9k
views
pvca error (Error in Data$variables : $ operator is invalid for atomic vectors)
pvca biobase
updated 9.2 years ago by • 0 • written 9.5 years ago by • 0
4
votes
6
replies
5.6k
views
Proper way to build phenoData object?
limma affy biobase
updated 9.7 years ago by ★ 4.1k • written 9.7 years ago by ▴ 10
1
vote
3
replies
2.6k
views
Error installing Biobase on R 3.1.2
biobase
updated 9.8 years ago by ★ 2.1k • written 9.8 years ago by • 0
0
votes
2
replies
1.4k
views
How to Represent Data from Various Different Assays in a Single Class?
biobase
updated 9.9 years ago by ★ 1.1k • written 9.9 years ago by ▴ 20
50 results • Page 1 of 1
Recent ...
Replies
Answer: Combining RNAseq and microarray data using edgeR/limma-voom by Gordon Smyth 51k
I agree with James, although I tend to combine analyses using geneset tests rather than by meta analysis tools like GeneMeta. > My questio…
Comment: Adjusted p-values become NA when sub-setting samples by txema.heredia • 0
Thanks! I've been looking into DESeq2's code and, indeed, I get matching results when running manually the code inherited from the `genefi…
Answer: DESeq2 interaction between cancer cells and microenvironment cells by Michael Love 42k
I don't really know what you mean by "come from the contamination". You can look at the main effects and the interaction, but I don't know …
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Fahd • 0
Thanks for looking into this. This issue results in the incorrect usage of multiple ORA software including EnrichR.
Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Guido Hooiveld ★ 4.1k
Yes, I understand the implications of replacing the `OrgDb` packages in release. Maybe an upload to the annotationHub or GitHub could be an…
Votes
A: p.adjust BH generates duplicate values
Answer: Adjusted p-values become NA when sub-setting samples
Comment: Suggestion for FGSEA and GSEA creation for C57BL/6J Mice
Answer: Consistent Decimals In Data After Antibody Array Background Correction Using Lim
A: How does edgeR cpm function calculate log(CPM) values?
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