Showing : R • reset
3
votes
3
replies
13k
views
How to fix 'long vectors not supported yet' error in R
r
updated 6 weeks ago by • 0 • written 5.3 years ago by • 0
0
votes
0
replies
127
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
11 weeks ago danalvoronov ▴ 10
0
votes
4
replies
394
views
limma with interaction term
R biostatistics limma Epigenetics
3 months ago • updated 11 weeks ago Jitendra ▴ 10
0
votes
3
replies
1.7k
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 9.3 years ago by ▴ 10
0
votes
3
replies
522
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
updated 5 months ago by • 0 • written 5 months ago by • 0
0
votes
0
replies
246
views
multipollutant models
statistics Regression r limma
5 months ago Jitendra ▴ 10
3
votes
4
replies
560
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 6 months ago by ▴ 730 • written 3.0 years ago by • 0
0
votes
10
replies
846
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
6 months ago • updated 11 weeks ago ScafioRuo • 0
10
votes
10
replies
7.4k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 8 weeks ago by • 0 • written 6 months ago by ▴ 10
0
votes
2
replies
584
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
639
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
10 months ago • updated 9 months ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
533
views
Gene enrichment analysis
analysis R GOfuncR
updated 11 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
651
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
519
views
DEseq2 Single cell data paired design
R
updated 12 months ago by ▴ 30 • written 12 months ago by • 0
0
votes
4
replies
922
views
Combine RNA-seq
BatchEffect R rnaseq
updated 13 months ago by ★ 1.4k • written 13 months ago by • 0
1
vote
3
replies
889
views
tximport error
tximport r
updated 13 months ago by 42k • written 13 months ago by • 0
1
vote
2
replies
914
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
13 months ago Abdul ▴ 20
0
votes
0
replies
498
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 ★ 4.0k • written 13 months ago by • 0
0
votes
4
replies
926
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
5.0k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
14 months ago Laia ▴ 10
0
votes
3
replies
4.0k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 14 months ago by ★ 4.0k • written 15 months ago by • 0
0
votes
1
reply
752
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
484
views
rDGIdb package: score of the results
rDGIdb r
14 months ago HELEN • 0
2
votes
1
reply
530
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
891
views
how to extract list in quantile in R
R quantile list
14 months ago sat • 0
0
votes
0
replies
583
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
577
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
829
views
how to extract and match information of two filein R
R column match
14 months ago sat • 0
0
votes
0
replies
527
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
15 months ago • updated 14 months ago Jitendra ▴ 10
0
votes
1
reply
744
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 15 months ago by 65k • written 15 months ago by • 0
0
votes
3
replies
996
views
batch effect in EPIC array data
statistics Epigenetics R
updated 15 months ago by ▴ 730 • written 15 months ago by ▴ 10
1
vote
2
replies
863
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
15 months ago abhisek001 • 0
0
votes
4
replies
983
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
15 months ago Dr. • 0
0
votes
1
reply
923
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
546
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 16 months ago by • 0
0
votes
3
replies
978
views
Error when using "readTranscriptFeatures" in "Genomation" R package for loading the bed file
readTranscriptFeatures R genomation bed
updated 16 months ago by 65k • written 16 months ago by • 0
0
votes
1
reply
659
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
743
views
TnSeq as ZINB? Alternatives in R?
DESeq2 R edgeR Python TnSeq
updated 17 months ago by • 0 • written 18 months ago by ▴ 90
2
votes
4
replies
2.2k
views
question regarding installation of "enrichplot" with BiocManager
R BiocManager install clusterProfiler GO
written 17 months ago by • 0
0
votes
1
reply
671
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
Answer: Numerical differences in DESeq2 output depending on different design matrix cons by Michael Love 42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs by Michael Love 42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by swbarnes2 ★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Awards • All
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to Koen Van den Berge ▴ 180
Popular Question to shepherl 3.9k
Popular Question to Ken C • 0
Popular Question to Johannes Rainer ★ 2.0k
Locations • All
EMBL Heidelberg, 2 hours ago
Sweden, 3 hours ago
WEHI, Melbourne, Australia, 3 hours ago
The city by the bay, 3 hours ago
UPF, Barcelona, Spain, 3 hours ago
Traffic: 291 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6