Showing : biobase • reset
0
votes
4
replies
318
views
Newbie Question - adding metadata to an analysis
Biobase
8 weeks ago • updated 7 weeks ago Bryan H • 0
0
votes
0
replies
457
views
Job: PhD-position in bioinformatics / computational biology
Epigenomics NGS Aging Biobase
updated 8 months ago by 43k • written 8 months ago by • 0
3
votes
3
replies
916
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array BiocGenerics BiocParallel Biobase
10 months ago jacques.imbert • 0
1
vote
4
replies
970
views
Help for SeqVarData function
Biobase SeqVarTools
18 months ago pjuge • 0
2
votes
4
replies
2.2k
views
Failed to install Biobase
GSVA Biobase
updated 23 months ago by 68k • written 23 months ago by • 0
0
votes
2
replies
1.4k
views
Automatically disconnecting database connections stored within an S4 object
DBI S4 Biobase
updated 2.5 years ago by 16k • written 2.5 years ago by ▴ 70
0
votes
1
reply
4.6k
views
NMF installation with current R version
NMF Biobase
updated 2.8 years ago by 4.1k • written 2.8 years ago by • 0
2
votes
1
reply
2.2k
views
Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase SingleCellData seurat SingleCell
updated 3.1 years ago by 68k • written 3.1 years ago by • 0
2
votes
3
replies
3.2k
views
Suppress messages from ALL calls to load package
suppressPackageStartupMessages Biobase
updated 3.3 years ago by ★ 4.7k • written 3.3 years ago by ▴ 210
2
votes
0
replies
838
views
PREDA shiny Golem issue
PREDAsampledata PREDA Biobase
3.3 years ago Gavin ▴ 20
0
votes
2
replies
1.3k
views
Gene expression in R
limma edgeR Biobase GeneExpression
3.5 years ago sogol.bouyeh • 0
3
votes
4
replies
2.5k
views
R session aborted: prcomp
Biobase stats
updated 3.9 years ago by ★ 4.0k • written 3.9 years ago by • 0
0
votes
0
replies
1.1k
views
Job: Cancer Bioinformatician @ University of East Anglia - Norwich Medical School, UK
cancer postdoc biomarkers Biobase
3.9 years ago Daniel Brewer ▴ 100
0
votes
0
replies
1.2k
views
Job: Senior Research Associate in Bioinformatics @ University of East Anglia - Norwich Medical School, UK
Biobase bioinformatics biomarkers cancer
4.2 years ago Daniel Brewer ▴ 100
0
votes
3
replies
1.7k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 4.2 years ago by 68k • written 4.2 years ago by • 0
0
votes
0
replies
906
views
Job: Postdoctoral Associate position to study hematopoietic neoplasms using advanced single-cell multi-omics technologies
Biobase
4.2 years ago NamLab • 0
0
votes
0
replies
899
views
Job: Data analyst position to study hematopoietic neoplasms via single-cell multi-omics
Biobase
4.2 years ago NamLab • 0
0
votes
1
reply
914
views
Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
updated 4.2 years ago by 68k • written 4.2 years ago by • 0
1
vote
0
replies
1.0k
views
Job: Computational Biologist at Denali Therapeutics
Biobase biomarker neuroscience biotech
4.3 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
4.4 years ago Axel Klenk ★ 1.1k
4
votes
8
replies
3.0k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
updated 4.8 years ago by 52k • written 4.8 years ago by • 0
0
votes
0
replies
1.1k
views
No methods found in package Biobase for request: read.AnnotatedDataFrame
software error biobase Iranges ArrayExpressHTS
5.0 years ago Ed Siefker ▴ 230
0
votes
3
replies
2.1k
views
When applying rma to featureset get error: 'package' must be of length 1
oligo biobase GEOquery
updated 5.4 years ago by 68k • written 5.4 years ago by ▴ 20
3
votes
3
replies
2.1k
views
Is there a way to save and open an expression set?
biobase
updated 5.4 years ago by ★ 4.0k • written 5.4 years ago by ▴ 20
0
votes
5
replies
2.5k
views
Install a custom CDF file
makecdf RMA annotation biobase GEOquery
updated 5.7 years ago by 68k • written 5.7 years ago by • 0
2
votes
4
replies
3.0k
views
error: namespace Loading DESeq2
deseq2 error namespace biobase
updated 6.2 years ago by 68k • written 6.2 years ago by • 0
0
votes
2
replies
1.5k
views
GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
6.3 years ago cschot3 • 0
4
votes
8
replies
2.8k
views
ALL dataset, correct syntax using the exprs call?
ALL bioconductor biobase exprs
updated 6.6 years ago by 25k • written 6.6 years ago by • 0
2
votes
2
replies
1.5k
views
aaMap Import "Not Available"
bioconductor biobase aaMap
updated 6.6 years ago by ▴ 20 • written 6.6 years ago by • 0
5
votes
7
replies
1.9k
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 6.6 years ago by 25k • written 6.6 years ago by ▴ 20
2
votes
2
replies
5.0k
views
AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
10.3 years ago • updated 6.6 years ago nonCodingGene ▴ 10
2
votes
10
replies
2.2k
views
Am I on the right tracks with a 3 factor design in Limma?
r limma design matrix biobase
updated 6.7 years ago by 52k • written 6.7 years ago by • 0
2
votes
2
replies
2.8k
views
Error in log2(exprs(eSet)) : non-numeric argument to mathematical function
microarray biobase
6.7 years ago charlesgwellem ▴ 10
8
votes
2
replies
3.7k
views
exprs function - clash with dplyr
exprs dplyr Biobase
6.8 years ago Wolfgang Huber ★ 13k
1
vote
3
replies
1.8k
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 7.3 years ago by ★ 28k • written 7.3 years ago by ▴ 30
2
votes
3
replies
2.1k
views
GEOquery problem in calling the function in Rstudio
R software error biobase geoquery
updated 7.6 years ago by 68k • written 7.6 years ago by • 0
4
votes
3
replies
1.4k
views
How to set custom Brainarray annotation for Biobase ExpressionSet object?
affymetrix microarrays expressionset biobase annotation brainarray
updated 7.6 years ago by 68k • written 7.6 years ago by • 0
0
votes
1
reply
1.3k
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 7.8 years ago by 68k • written 7.8 years ago by ▴ 60
1
vote
2
replies
3.5k
views
how to update feature data with different dimensions in expressionSet?
biobase eSet expressionSet
updated 8.3 years ago by 25k • written 8.3 years ago by ★ 4.1k
6
votes
13
replies
2.5k
views
Comparison of Column of AnnotatedDataFrame
biobase AnnotatedDataFrame
8.4 years ago Dario Strbenac ★ 1.6k
0
votes
4
replies
1.6k
views
`exprs<-` Allows setting assay data matrix size that doesn't match se.exprs
Biobase
updated 8.5 years ago by ★ 6.5k • written 8.6 years ago by • 0
1
vote
2
replies
2.8k
views
making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase convert sva ringo arrayqualitymetrics
updated 9.0 years ago by 52k • written 9.0 years ago by • 0
2
votes
2
replies
8.9k
views
Convert Expression Set into a Matrix or Data Frame
microarray biobase affy R
updated 9.1 years ago by ▴ 760 • written 9.1 years ago by • 0
0
votes
2
replies
1.7k
views
Help with annotating eset (Affy Arrays)
Biobase annotationdbi affy microarray
9.3 years ago rumroses12 • 0
2
votes
5
replies
4.1k
views
How to use t.test to select best features out of multiple features?
microarray biobase feature selection t.test R
updated 9.5 years ago by ▴ 840 • written 9.5 years ago by ▴ 10
1
vote
3
replies
3.5k
views
How to use expression set object to select genes using different gene selection methods
microarray biobase geoquery
updated 9.5 years ago by ▴ 840 • written 9.5 years ago by ▴ 10
0
votes
1
reply
3.4k
views
Excluding columns of phenoData of ExpressionSet Data in R
microarray biobase expresiondataset r
9.5 years ago floodking • 0
0
votes
1
reply
6.0k
views
pvca error (Error in Data$variables : $ operator is invalid for atomic vectors)
pvca biobase
updated 9.6 years ago by • 0 • written 9.9 years ago by • 0
4
votes
6
replies
5.8k
views
Proper way to build phenoData object?
limma affy biobase
updated 10.1 years ago by ★ 4.1k • written 10.1 years ago by ▴ 10
1
vote
3
replies
2.8k
views
Error installing Biobase on R 3.1.2
biobase
updated 10.1 years ago by ★ 2.1k • written 10.1 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: DepMap data mismatch by Laurent Gatto 1.6k
It might be due to different versions. The repacked/cleaned data in the `depmap` R/Bioconductor package is old, but the latest files can al…
Comment: Conumee2 - CNV.summaryplot() by James W. MacDonald 68k
If you are using `conumee2`, then you are in the wrong place. That isn't a Bioconductor package (yet? No idea if they have/will submit it).
Answer: myvariant error by James W. MacDonald 68k
You don't show anything about the data you are annotating, so it's hard to say what the problem might be. Does the example data work for yo…
Answer: Conumee2 - CNV.summaryplot() by James W. MacDonald 68k
There doesn't appear to be a function called `CNV.summaryplot` in `conumee`. What package does that function come from?
Comment: Use of limma R package with targeted proteomics for DE analysis by svlachavas ▴ 840
Dear Gordon, thank you for returning back ! Actually the output is not "NPX"-as indeed it most frequent output for a lot of pannels-but as …
Votes
A: What is the "linear model" part used for in Limma?
Comment: Use of limma R package with targeted proteomics for DE analysis
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Awards • All
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