Showing : Biobase • reset
3
votes
3
replies
141
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array BiocGenerics BiocParallel Biobase
7 days ago • updated 1 day ago jacques.imbert • 0
1
vote
4
replies
551
views
Help for SeqVarData function
Biobase SeqVarTools
8 months ago pjuge • 0
2
votes
4
replies
1.3k
views
Failed to install Biobase
GSVA Biobase
updated 12 months ago by 65k • written 12 months ago by • 0
0
votes
2
replies
984
views
Automatically disconnecting database connections stored within an S4 object
DBI S4 Biobase
updated 20 months ago by 16k • written 20 months ago by ▴ 70
0
votes
1
reply
2.8k
views
NMF installation with current R version
NMF Biobase
updated 23 months ago by 3.8k • written 23 months ago by • 0
2
votes
1
reply
1.6k
views
Convert AnnotatedDataFrame S4 object from GEO datasets to Seurat Object
biobase SingleCellData seurat SingleCell
updated 2.2 years ago by 65k • written 2.2 years ago by • 0
2
votes
3
replies
1.9k
views
Suppress messages from ALL calls to load package
suppressPackageStartupMessages Biobase
updated 2.4 years ago by ★ 4.0k • written 2.4 years ago by ▴ 210
2
votes
0
replies
610
views
PREDA shiny Golem issue
PREDAsampledata PREDA Biobase
2.4 years ago Gavin ▴ 20
0
votes
2
replies
935
views
Gene expression in R
limma edgeR Biobase GeneExpression
2.6 years ago sogol.bouyeh • 0
3
votes
4
replies
2.0k
views
R session aborted: prcomp
Biobase stats
updated 3.1 years ago by ★ 3.9k • written 3.1 years ago by • 0
0
votes
0
replies
837
views
Job: Cancer Bioinformatician @ University of East Anglia - Norwich Medical School, UK
cancer postdoc biomarkers Biobase
3.1 years ago Daniel Brewer ▴ 100
0
votes
0
replies
893
views
Job: Senior Research Associate in Bioinformatics @ University of East Anglia - Norwich Medical School, UK
Biobase bioinformatics biomarkers cancer
3.3 years ago Daniel Brewer ▴ 100
0
votes
3
replies
1.4k
views
ReadAffy does not take into account parameter sampleNames with phenoData object
affycoretools ReadAffy Biobase phenoData affy
updated 3.3 years ago by 65k • written 3.3 years ago by • 0
0
votes
0
replies
681
views
Job: Postdoctoral Associate position to study hematopoietic neoplasms using advanced single-cell multi-omics technologies
Biobase
3.3 years ago NamLab • 0
0
votes
0
replies
675
views
Job: Data analyst position to study hematopoietic neoplasms via single-cell multi-omics
Biobase
3.3 years ago NamLab • 0
0
votes
1
reply
676
views
Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
updated 3.4 years ago by 65k • written 3.4 years ago by • 0
1
vote
0
replies
785
views
Job: Computational Biologist at Denali Therapeutics
Biobase biomarker neuroscience biotech
3.4 years ago sandmann.t ▴ 70
1
vote
3
replies
878
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
4
votes
8
replies
2.2k
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
0
votes
0
replies
868
views
No methods found in package Biobase for request: read.AnnotatedDataFrame
software error biobase Iranges ArrayExpressHTS
4.1 years ago Ed Siefker ▴ 230
0
votes
3
replies
1.7k
views
When applying rma to featureset get error: 'package' must be of length 1
oligo biobase GEOquery
updated 4.5 years ago by 65k • written 4.5 years ago by ▴ 20
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
0
votes
5
replies
2.0k
views
Install a custom CDF file
makecdf RMA annotation biobase GEOquery
updated 4.8 years ago by 65k • written 4.8 years ago by • 0
2
votes
4
replies
2.4k
views
error: namespace Loading DESeq2
deseq2 error namespace biobase
updated 5.3 years ago by 65k • written 5.3 years ago by • 0
0
votes
2
replies
1.2k
views
GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
5.4 years ago cschot3 • 0
4
votes
8
replies
2.3k
views
ALL dataset, correct syntax using the exprs call?
ALL bioconductor biobase exprs
updated 5.7 years ago by 25k • written 5.7 years ago by • 0
2
votes
2
replies
1.2k
views
aaMap Import "Not Available"
bioconductor biobase aaMap
updated 5.7 years ago by ▴ 20 • written 5.7 years ago by • 0
5
votes
7
replies
1.5k
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 5.7 years ago by 25k • written 5.7 years ago by ▴ 20
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
2.4k
views
Error in log2(exprs(eSet)) : non-numeric argument to mathematical function
microarray biobase
5.8 years ago charlesgwellem ▴ 10
8
votes
2
replies
3.0k
views
exprs function - clash with dplyr
exprs dplyr Biobase
5.9 years ago Wolfgang Huber ★ 13k
1
vote
3
replies
1.5k
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 6.4 years ago by ★ 28k • written 6.4 years ago by ▴ 30
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
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
0
votes
1
reply
1.1k
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 6.9 years ago by 65k • written 6.9 years ago by ▴ 60
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
6
votes
13
replies
2.0k
views
Comparison of Column of AnnotatedDataFrame
biobase AnnotatedDataFrame
7.6 years ago Dario Strbenac ★ 1.5k
0
votes
4
replies
1.3k
views
`exprs<-` Allows setting assay data matrix size that doesn't match se.exprs
Biobase
updated 7.7 years ago by ★ 6.5k • written 7.7 years ago by • 0
1
vote
2
replies
2.4k
views
making ExpressionSet from RGList via NChannelSet for use with 'sva'
biobase convert sva ringo arrayqualitymetrics
updated 8.1 years ago by 50k • written 8.1 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 8.2 years ago by ▴ 760 • written 8.2 years ago by • 0
0
votes
2
replies
1.4k
views
Help with annotating eset (Affy Arrays)
Biobase annotationdbi affy microarray
8.5 years ago rumroses12 • 0
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
3
replies
3.0k
views
How to use expression set object to select genes using different gene selection methods
microarray biobase geoquery
updated 8.6 years ago by ▴ 830 • written 8.6 years ago by ▴ 10
0
votes
1
reply
3.0k
views
Excluding columns of phenoData of ExpressionSet Data in R
microarray biobase expresiondataset r
8.6 years ago floodking • 0
0
votes
1
reply
5.7k
views
pvca error (Error in Data$variables : $ operator is invalid for atomic vectors)
pvca biobase
updated 8.7 years ago by • 0 • written 9.0 years ago by • 0
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
1
vote
3
replies
2.4k
views
Error installing Biobase on R 3.1.2
biobase
updated 9.2 years ago by ★ 2.0k • written 9.2 years ago by • 0
0
votes
2
replies
1.3k
views
How to Represent Data from Various Different Assays in a Single Class?
biobase
updated 9.3 years ago by ★ 1.1k • written 9.3 years ago by ▴ 20
2
votes
2
replies
4.4k
views
AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
9.4 years ago • updated 5.8 years ago nonCodingGene ▴ 10
0
votes
3
replies
1.5k
views
conflict in names between phenoData and protocolData during RMA
biobase
9.5 years ago bin.shan • 0
50 results • Page 1 of 1
Recent ...
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Comment: Differential peaks that were not identified in diffbind were identified in diseq by lonn • 0
I tried the default normalization and got similar results as above. Perhaps I need to try identifying the difference peak without using dif…
Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Votes
Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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