Showing : biobase • reset
0
votes
4
replies
346
views
Newbie Question - adding metadata to an analysis
Biobase
12 weeks ago Bryan H • 0
0
votes
0
replies
488
views
Job: PhD-position in bioinformatics / computational biology
Epigenomics NGS Aging Biobase
updated 9 months ago by 43k • written 9 months ago by • 0
3
votes
3
replies
1.0k
views
Reading huge bismark coverage files using bbseq::read.bismark
HDF5Array BiocGenerics BiocParallel Biobase
11 months ago jacques.imbert • 0
1
vote
4
replies
988
views
Help for SeqVarData function
Biobase SeqVarTools
19 months ago pjuge • 0
2
votes
4
replies
2.3k
views
Failed to install Biobase
GSVA Biobase
updated 2.0 years ago by 68k • written 2.0 years ago by • 0
0
votes
2
replies
1.5k
views
Automatically disconnecting database connections stored within an S4 object
DBI S4 Biobase
updated 2.6 years ago by 16k • written 2.6 years ago by ▴ 70
0
votes
1
reply
4.8k
views
NMF installation with current R version
NMF Biobase
updated 2.9 years ago by 4.1k • written 2.9 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 3.2 years ago by 68k • written 3.2 years ago by • 0
2
votes
3
replies
3.5k
views
Suppress messages from ALL calls to load package
suppressPackageStartupMessages Biobase
updated 3.3 years ago by ★ 4.8k • written 3.3 years ago by ▴ 210
2
votes
0
replies
851
views
PREDA shiny Golem issue
PREDAsampledata PREDA Biobase
3.4 years ago Gavin ▴ 20
0
votes
2
replies
1.3k
views
Gene expression in R
limma edgeR Biobase GeneExpression
3.6 years ago sogol.bouyeh • 0
3
votes
4
replies
2.6k
views
R session aborted: prcomp
Biobase stats
updated 4.0 years ago by ★ 4.0k • written 4.0 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
4.0 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
4.3 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 4.3 years ago by 68k • written 4.3 years ago by • 0
0
votes
0
replies
920
views
Job: Postdoctoral Associate position to study hematopoietic neoplasms using advanced single-cell multi-omics technologies
Biobase
4.3 years ago NamLab • 0
0
votes
0
replies
912
views
Job: Data analyst position to study hematopoietic neoplasms via single-cell multi-omics
Biobase
4.3 years ago NamLab • 0
0
votes
1
reply
926
views
Calculations (averaging and normalization) with expressionset
RTCA Biobase Bioconductor expressionset
updated 4.3 years ago by 68k • written 4.3 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
1.2k
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
3.1k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma biobase ExpressionSet
updated 4.9 years ago by 52k • written 4.9 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
5.1 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
2.2k
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
2.6k
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 6.3 years ago by 68k • written 6.3 years ago by • 0
0
votes
2
replies
1.5k
views
GEOQuery bug, NCBI or package?
geoquery ncbi geo biobase
6.4 years ago cschot3 • 0
4
votes
8
replies
2.9k
views
ALL dataset, correct syntax using the exprs call?
ALL bioconductor biobase exprs
updated 6.7 years ago by 25k • written 6.7 years ago by • 0
2
votes
2
replies
1.5k
views
aaMap Import "Not Available"
bioconductor biobase aaMap
updated 6.7 years ago by ▴ 20 • written 6.7 years ago by • 0
5
votes
7
replies
1.9k
views
Difficulty extending ExpressionSet
biobase expressionset eset
updated 6.7 years ago by 25k • written 6.7 years ago by ▴ 20
2
votes
2
replies
5.0k
views
AnnotatedDataFrame is not a defined class
annotatedDataFrame R Biobase
10.4 years ago • updated 6.7 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 6.8 years ago by 52k • written 6.8 years ago by • 0
2
votes
2
replies
2.8k
views
Error in log2(exprs(eSet)) : non-numeric argument to mathematical function
microarray biobase
6.8 years ago charlesgwellem ▴ 10
8
votes
2
replies
3.7k
views
exprs function - clash with dplyr
exprs dplyr Biobase
6.9 years ago Wolfgang Huber ★ 13k
1
vote
3
replies
1.8k
views
Boxplot and Identification of DEG
limma biobase geoquery
updated 7.4 years ago by ★ 28k • written 7.4 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 7.7 years ago by 68k • written 7.7 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 7.7 years ago by 68k • written 7.7 years ago by • 0
0
votes
1
reply
1.3k
views
Problem Subsetting ExpressionSet
expressionset biobase bioconductor
updated 7.9 years ago by 68k • written 7.9 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 8.4 years ago by 25k • written 8.4 years ago by ★ 4.1k
6
votes
13
replies
2.5k
views
Comparison of Column of AnnotatedDataFrame
biobase AnnotatedDataFrame
8.5 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 8.6 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 9.1 years ago by 52k • written 9.1 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 9.2 years ago by ▴ 760 • written 9.2 years ago by • 0
0
votes
2
replies
1.7k
views
Help with annotating eset (Affy Arrays)
Biobase annotationdbi affy microarray
9.4 years ago rumroses12 • 0
2
votes
5
replies
4.2k
views
How to use t.test to select best features out of multiple features?
microarray biobase feature selection t.test R
updated 9.6 years ago by ▴ 840 • written 9.6 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 9.6 years ago by ▴ 840 • written 9.6 years ago by ▴ 10
0
votes
1
reply
3.4k
views
Excluding columns of phenoData of ExpressionSet Data in R
microarray biobase expresiondataset r
9.6 years ago floodking • 0
0
votes
1
reply
6.1k
views
pvca error (Error in Data$variables : $ operator is invalid for atomic vectors)
pvca biobase
updated 9.6 years ago by • 0 • written 10.0 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 10.2 years ago by ★ 2.1k • written 10.2 years ago by • 0
50 results • Page 1 of 1
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Comment: DESeq2 - human data, weird results, troubleshooting by bd2000 ▴ 30
I didn't include all of my code the post would be too long. Here's a link to my GitHub if anyone would like to see the full code: [Full Rst…
Answer: DESeq: Gene is not flagged as differentially expressed despite count data showin by James W. MacDonald 68k
The simple answer is that the within-group variability is much higher for the first gene as compared to the second. The Wald statistic is j…
Comment: DESeq: Gene is not flagged as differentially expressed despite count data showin by ATpoint ★ 4.8k
> since there doesn't seem to be as much count variability, No? Your CD45 samples range on normalized scale from 2 to 3255. That's 3 orde…
Comment: Ensembl site unresponsive via biomaRt by darylruiz6545 • 0
Thank you so much for sharing the link.
Comment: compute_fasta_digest does not match Salmon index hash by Alex • 0
I use the `fastaDigest` tool from [COMBINE-lab/fastaDigest](https://github.com/COMBINE-lab/FastaDigest/), which has the function `compute_f…
Votes
Two EPIC Methylation Array Analysis Questions
How to get DMR for Infinium methylation EPIC v2
A: GEOquery Fails to Download Series Matrix File
Comment: Gene IDs conversion between Ensembl and NCBI nomenclature for non-model species
what the test method for enrichGO in clusterProfiler?
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