Showing : R • reset
0
votes
1
reply
355
views
XCMS Data Processing
r xcms metabolomi NTA Metabolomics
updated 8 months ago by 68k • written 8 months ago by • 0
6
votes
10
replies
3.3k
views
What type of counts data to import for performing Isoform analysis in edgeR
limma isoform edgeR salmon R
updated 10 months ago by ★ 5.0k • written 10 months ago by ▴ 10
0
votes
0
replies
388
views
[maser] Why does maser coverage filtering ignore skipping counts of an alt. splicing analysis?
rMATS alternativesplicing maser R
12 months ago Anke • 0
1
vote
1
reply
777
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 13 months ago by 68k • written 13 months ago by • 0
2
votes
3
replies
885
views
DeSeq2 Model Problems with species, tissue, and tissue status nesting
DESeq2 R
written 14 months ago by • 0
3
votes
3
replies
16k
views
How to fix 'long vectors not supported yet' error in R
r
updated 18 months ago by • 0 • written 6.6 years ago by • 0
0
votes
0
replies
491
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
19 months ago danalvoronov ▴ 10
0
votes
4
replies
1.1k
views
limma with interaction term
R biostatistics limma Epigenetics
20 months ago • updated 19 months ago Jitendra ▴ 10
0
votes
3
replies
2.3k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
written 4.6 years ago by • 0
1
vote
5
replies
2.7k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 10.7 years ago by ▴ 10
0
votes
10
replies
3.6k
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
written 22 months ago by • 0
0
votes
0
replies
637
views
multipollutant models
statistics Regression r limma
22 months ago Jitendra ▴ 10
3
votes
4
replies
1.3k
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
22 months ago pl23 • 0
1
vote
3
replies
2.5k
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 23 months ago by ▴ 750 • written 4.4 years ago by • 0
0
votes
10
replies
1.8k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
23 months ago • updated 19 months ago ScafioRuo • 0
12
votes
10
replies
16k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 18 months ago by • 0 • written 23 months ago by ▴ 20
0
votes
2
replies
1.2k
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq HTSeq R
2.2 years ago • updated 2.1 years ago yr542 • 0
1
vote
2
replies
1.3k
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
2.2 years ago Miguel • 0
2
votes
5
replies
2.0k
views
Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
R edgeR RNASeq
2.2 years ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
950
views
Gene enrichment analysis
analysis R GOfuncR
updated 2.3 years ago by ▴ 760 • written 2.3 years ago by • 0
0
votes
2
replies
1.9k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 2.4 years ago by • 0 • written 4.6 years ago by • 0
0
votes
1
reply
1.1k
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 2.4 years ago by 53k • written 2.4 years ago by • 0
0
votes
1
reply
859
views
DEseq2 Single cell data paired design
R
updated 2.5 years ago by ▴ 30 • written 2.5 years ago by • 0
0
votes
4
replies
1.7k
views
Combine RNA-seq
BatchEffect R rnaseq
updated 2.5 years ago by ★ 1.4k • written 2.5 years ago by • 0
1
vote
3
replies
1.6k
views
tximport error
tximport r
updated 2.5 years ago by 43k • written 2.5 years ago by • 0
1
vote
2
replies
1.7k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
2.5 years ago Abdul ▴ 20
0
votes
0
replies
873
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
2.5 years ago aymanreffai • 0
1
vote
1
reply
3.2k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 2.5 years ago by ★ 4.1k • written 2.5 years ago by ▴ 10
0
votes
4
replies
1.7k
views
Unable to install BiocManager
Biocmanager R
updated 2.5 years ago by ▴ 50 • written 2.5 years ago by • 0
1
vote
1
reply
2.1k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 2.5 years ago by • 0 • written 2.6 years ago by • 0
0
votes
13
replies
13k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
2.6 years ago Laia ▴ 10
1
vote
3
replies
8.4k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 2.6 years ago by ★ 4.1k • written 2.6 years ago by ▴ 10
0
votes
1
reply
1.5k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 2.6 years ago by ▴ 760 • written 2.6 years ago by ▴ 10
0
votes
0
replies
823
views
rDGIdb package: score of the results
rDGIdb r
2.6 years ago HELEN • 0
2
votes
1
reply
856
views
add column with name in R
name R column
updated 2.6 years ago by ▴ 70 • written 2.6 years ago by • 0
0
votes
4
replies
1.8k
views
how to extract list in quantile in R
R quantile list
2.6 years ago sat • 0
0
votes
0
replies
1.2k
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
2.6 years ago Manav • 0
0
votes
0
replies
1.0k
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
2.6 years ago Jitendra ▴ 10
3
votes
2
replies
1.5k
views
how to extract and match information of two filein R
R column match
2.6 years ago sat • 0
0
votes
0
replies
946
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
2.6 years ago info ▴ 10
0
votes
17
replies
2.9k
views
How to check linear model
modalmatrix limma R linear
2.6 years ago Jitendra ▴ 10
0
votes
1
reply
1.2k
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
0
votes
3
replies
2.0k
views
batch effect in EPIC array data
statistics Epigenetics R
updated 2.6 years ago by ▴ 760 • written 2.6 years ago by ▴ 10
1
vote
2
replies
1.6k
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
2.6 years ago abhisek001 • 0
0
votes
4
replies
1.7k
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
2.7 years ago • updated 2.6 years ago Dr. • 0
0
votes
1
reply
1.8k
views
Extract Intersection Values from Venn
R Venn
updated 2.7 years ago by 68k • written 2.7 years ago by • 0
2
votes
6
replies
2.7k
views
DMRcate
DMRcate R DMRcatedata Markdown
2.7 years ago yr542 • 0
0
votes
0
replies
885
views
How to use MeDIPS with BEDPE format input?
R medip-seq MEDIPS
2.7 years ago Luomeng • 0
2
votes
9
replies
2.0k
views
mas5calls function doesn't work; mirna40cdf problem
R Bioconductor mas5calls
updated 2.7 years ago by 68k • written 2.7 years ago by • 0
1
vote
2
replies
4.6k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma R ExpressionData
updated 2.7 years ago by 53k • written 2.7 years ago by • 0
1,163 results • Page 1 of 24
Recent ...
Replies
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Awards • All
Popular Question to Peter • 0
Popular Question to Travis • 0
Popular Question to James W. MacDonald 68k
Popular Question to Gordon Smyth 53k
Popular Question to shepherl 4.2k
Locations • All
The city by the bay, 19 minutes ago
United States, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
United States, 2 hours ago
United States, 4 hours ago
Traffic: 511 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