Showing : r • reset
3
votes
3
replies
13k
views
How to fix 'long vectors not supported yet' error in R
r
updated 5 weeks ago by • 0 • written 5.2 years ago by • 0
0
votes
0
replies
121
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
10 weeks ago danalvoronov ▴ 10
0
votes
4
replies
380
views
limma with interaction term
R biostatistics limma Epigenetics
3 months ago • updated 10 weeks ago Jitendra ▴ 10
0
votes
3
replies
1.6k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
written 3.2 years ago by • 0
1
vote
5
replies
2.2k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 9.2 years ago by ▴ 10
0
votes
3
replies
504
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
updated 4 months ago by • 0 • written 5 months ago by • 0
0
votes
0
replies
238
views
multipollutant models
statistics Regression r limma
5 months ago Jitendra ▴ 10
3
votes
4
replies
543
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
5 months ago pl23 • 0
1
vote
3
replies
1.4k
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 5 months ago by ▴ 730 • written 3.0 years ago by • 0
0
votes
10
replies
828
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
5 months ago • updated 9 weeks ago ScafioRuo • 0
10
votes
10
replies
7.1k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 7 weeks ago by • 0 • written 6 months ago by ▴ 10
0
votes
2
replies
567
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq HTSeq R
9 months ago • updated 8 months ago yr542 • 0
1
vote
2
replies
617
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
9 months ago Miguel • 0
2
votes
5
replies
1.4k
views
Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
R edgeR RNASeq
9 months ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
524
views
Gene enrichment analysis
analysis R GOfuncR
updated 10 months ago by ▴ 730 • written 11 months ago by • 0
0
votes
2
replies
1.2k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 11 months ago by • 0 • written 3.2 years ago by • 0
0
votes
1
reply
638
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 12 months ago by 50k • written 12 months ago by • 0
0
votes
1
reply
511
views
DEseq2 Single cell data paired design
R
updated 12 months ago by ▴ 30 • written 12 months ago by • 0
0
votes
4
replies
911
views
Combine RNA-seq
BatchEffect R rnaseq
updated 12 months ago by ★ 1.4k • written 12 months ago by • 0
1
vote
3
replies
876
views
tximport error
tximport r
updated 12 months ago by 42k • written 12 months ago by • 0
1
vote
2
replies
904
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
13 months ago Abdul ▴ 20
0
votes
0
replies
489
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
13 months ago aymanreffai • 0
1
vote
1
reply
1.3k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 13 months ago by ★ 3.9k • written 13 months ago by • 0
0
votes
4
replies
908
views
Unable to install BiocManager
Biocmanager R
updated 13 months ago by ▴ 50 • written 13 months ago by • 0
1
vote
1
reply
1.3k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 13 months ago by • 0 • written 14 months ago by • 0
0
votes
13
replies
4.9k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
13 months ago Laia ▴ 10
0
votes
3
replies
3.9k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 14 months ago by ★ 3.9k • written 14 months ago by • 0
0
votes
1
reply
739
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 14 months ago by ▴ 740 • written 14 months ago by ▴ 10
0
votes
0
replies
473
views
rDGIdb package: score of the results
rDGIdb r
14 months ago HELEN • 0
2
votes
1
reply
523
views
add column with name in R
name R column
updated 14 months ago by ▴ 70 • written 14 months ago by • 0
0
votes
4
replies
882
views
how to extract list in quantile in R
R quantile list
14 months ago sat • 0
0
votes
0
replies
564
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
14 months ago Manav • 0
0
votes
0
replies
565
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
14 months ago Jitendra ▴ 10
3
votes
2
replies
816
views
how to extract and match information of two filein R
R column match
14 months ago sat • 0
0
votes
0
replies
522
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
14 months ago info ▴ 10
0
votes
17
replies
1.7k
views
How to check linear model
modalmatrix limma R linear
14 months ago Jitendra ▴ 10
0
votes
1
reply
738
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 14 months ago by 65k • written 14 months ago by • 0
0
votes
3
replies
966
views
batch effect in EPIC array data
statistics Epigenetics R
updated 14 months ago by ▴ 730 • written 14 months ago by ▴ 10
1
vote
2
replies
853
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
14 months ago abhisek001 • 0
0
votes
4
replies
967
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
15 months ago • updated 14 months ago Dr. • 0
0
votes
1
reply
904
views
Extract Intersection Values from Venn
R Venn
updated 15 months ago by 65k • written 15 months ago by • 0
2
votes
6
replies
1.7k
views
DMRcate
DMRcate R DMRcatedata Markdown
15 months ago yr542 • 0
0
votes
0
replies
537
views
How to use MeDIPS with BEDPE format input?
R medip-seq MEDIPS
15 months ago Luomeng • 0
2
votes
9
replies
1.3k
views
mas5calls function doesn't work; mirna40cdf problem
R Bioconductor mas5calls
updated 15 months ago by 65k • written 15 months ago by • 0
0
votes
2
replies
1.8k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma R ExpressionData
updated 15 months ago by 50k • written 15 months ago by • 0
0
votes
3
replies
954
views
Error when using "readTranscriptFeatures" in "Genomation" R package for loading the bed file
readTranscriptFeatures R genomation bed
updated 15 months ago by 65k • written 16 months ago by • 0
0
votes
1
reply
652
views
Limma: how to make a table of logFC of certain genes (I need to define logFC of 62 genes specific for the cells of interest)
DifferentialExpression limma R TissueMicroarrayData
updated 16 months ago by 50k • written 16 months ago by • 0
0
votes
2
replies
731
views
TnSeq as ZINB? Alternatives in R?
DESeq2 R edgeR Python TnSeq
updated 17 months ago by • 0 • written 17 months ago by ▴ 90
2
votes
4
replies
2.1k
views
question regarding installation of "enrichplot" with BiocManager
R BiocManager install clusterProfiler GO
written 17 months ago by • 0
0
votes
1
reply
668
views
Correction for multiple comparison by DeSeq2 - treatment1 vs. control, treatment2 vs. control, ... treatment n vs. control
DESeq2 MultipleComparison r
updated 17 months ago by 42k • written 17 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Comment: How to use spike-in information (sequences from another species) with DESeq2::DE by maria.soler • 0
Hi, I have a question barely related to this topic. Do you use a custom reference genome combining your organism and the one used as a spik…
Answer: Differential gene expression analysis results by ATpoint ★ 4.1k
Pease do not open multiple posts for the same issue: https://support.bioconductor.org/p/9158194/#9158222 The support site is not meant f…
Comment: deseq2 results by sajadahmad41454 • 0
thank you for your response, should i remove or discard that sample? since the red outlier on left represents one of healthy samples.
Votes
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
Comment: deseq2 results
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
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