Showing : R • reset
0
votes
1
reply
204
views
XCMS Data Processing
r xcms metabolomi NTA Metabolomics
updated 3 months ago by 68k • written 3 months ago by • 0
6
votes
10
replies
2.9k
views
What type of counts data to import for performing Isoform analysis in edgeR
limma isoform edgeR salmon R
updated 4 months ago by ★ 4.8k • written 4 months ago by ▴ 10
0
votes
0
replies
284
views
[maser] Why does maser coverage filtering ignore skipping counts of an alt. splicing analysis?
rMATS alternativesplicing maser R
6 months ago Anke • 0
1
vote
1
reply
618
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 7 months ago by 68k • written 7 months ago by • 0
2
votes
3
replies
738
views
DeSeq2 Model Problems with species, tissue, and tissue status nesting
DESeq2 R
written 9 months ago by • 0
3
votes
3
replies
15k
views
How to fix 'long vectors not supported yet' error in R
r
updated 12 months ago by • 0 • written 6.2 years ago by • 0
0
votes
0
replies
400
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
14 months ago danalvoronov ▴ 10
0
votes
4
replies
883
views
limma with interaction term
R biostatistics limma Epigenetics
14 months ago Jitendra ▴ 10
0
votes
3
replies
2.2k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
written 4.2 years ago by • 0
1
vote
5
replies
2.6k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 10.2 years ago by ▴ 10
0
votes
8
replies
3.2k
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
updated 7 days ago by • 0 • written 16 months ago by • 0
0
votes
0
replies
545
views
multipollutant models
statistics Regression r limma
17 months ago Jitendra ▴ 10
3
votes
4
replies
1.1k
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
17 months ago pl23 • 0
1
vote
3
replies
2.3k
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 17 months ago by ▴ 750 • written 4.0 years ago by • 0
0
votes
10
replies
1.5k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
17 months ago • updated 14 months ago ScafioRuo • 0
12
votes
10
replies
15k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 13 months ago by • 0 • written 18 months ago by ▴ 20
0
votes
2
replies
1.0k
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq HTSeq R
20 months ago • updated 19 months ago yr542 • 0
1
vote
2
replies
1.2k
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
21 months ago Miguel • 0
2
votes
5
replies
1.9k
views
Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
R edgeR RNASeq
21 months ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
840
views
Gene enrichment analysis
analysis R GOfuncR
updated 22 months ago by ▴ 760 • written 22 months ago by • 0
0
votes
2
replies
1.7k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 23 months ago by • 0 • written 4.2 years ago by • 0
0
votes
1
reply
967
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 24 months ago by 52k • written 24 months ago by • 0
0
votes
1
reply
763
views
DEseq2 Single cell data paired design
R
updated 2.0 years ago by ▴ 30 • written 2.0 years ago by • 0
0
votes
4
replies
1.5k
views
Combine RNA-seq
BatchEffect R rnaseq
updated 2.0 years ago by ★ 1.4k • written 2.0 years ago by • 0
1
vote
3
replies
1.4k
views
tximport error
tximport r
updated 2.0 years ago by 43k • written 2.0 years ago by • 0
1
vote
2
replies
1.5k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
2.0 years ago Abdul ▴ 20
0
votes
0
replies
768
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
2.0 years ago aymanreffai • 0
1
vote
1
reply
2.8k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 2.0 years ago by ★ 4.1k • written 2.0 years ago by ▴ 10
0
votes
4
replies
1.5k
views
Unable to install BiocManager
Biocmanager R
updated 2.0 years ago by ▴ 50 • written 2.0 years ago by • 0
1
vote
1
reply
1.9k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 2.1 years ago by • 0 • written 2.1 years ago by • 0
0
votes
13
replies
11k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
2.1 years ago Laia ▴ 10
1
vote
3
replies
7.6k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 2.1 years ago by ★ 4.1k • written 2.2 years ago by ▴ 10
0
votes
1
reply
1.3k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 2.1 years ago by ▴ 750 • written 2.1 years ago by ▴ 10
0
votes
0
replies
746
views
rDGIdb package: score of the results
rDGIdb r
2.1 years ago HELEN • 0
2
votes
1
reply
764
views
add column with name in R
name R column
updated 2.1 years ago by ▴ 70 • written 2.1 years ago by • 0
0
votes
4
replies
1.6k
views
how to extract list in quantile in R
R quantile list
2.1 years ago sat • 0
0
votes
0
replies
1.1k
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
2.1 years ago Manav • 0
0
votes
0
replies
866
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
2.2 years ago Jitendra ▴ 10
3
votes
2
replies
1.3k
views
how to extract and match information of two filein R
R column match
2.2 years ago sat • 0
0
votes
0
replies
795
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
2.2 years ago info ▴ 10
0
votes
17
replies
2.5k
views
How to check linear model
modalmatrix limma R linear
2.2 years ago Jitendra ▴ 10
0
votes
1
reply
1.1k
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
0
votes
3
replies
1.8k
views
batch effect in EPIC array data
statistics Epigenetics R
updated 2.2 years ago by ▴ 760 • written 2.2 years ago by ▴ 10
1
vote
2
replies
1.4k
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
2.2 years ago abhisek001 • 0
0
votes
4
replies
1.5k
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
2.2 years ago Dr. • 0
0
votes
1
reply
1.6k
views
Extract Intersection Values from Venn
R Venn
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
2
votes
6
replies
2.5k
views
DMRcate
DMRcate R DMRcatedata Markdown
2.2 years ago yr542 • 0
0
votes
0
replies
781
views
How to use MeDIPS with BEDPE format input?
R medip-seq MEDIPS
2.2 years ago Luomeng • 0
2
votes
9
replies
1.8k
views
mas5calls function doesn't work; mirna40cdf problem
R Bioconductor mas5calls
updated 2.2 years ago by 68k • written 2.2 years ago by • 0
1
vote
2
replies
4.2k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma R ExpressionData
updated 2.2 years ago by 52k • written 2.3 years ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: GSEA preranked analysis downstream of DEseq2 by Ajay • 0
`logFC * -log10(pval)` seems to be the pi-score proposed in this [paper][1] [1]: https://pmc.ncbi.nlm.nih.gov/articles/PMC3957066/
Comment: error in ChAMP loading file by janwilseo • 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis by donnycrimson • 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender by donnycrimson • 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Votes
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
Awards • All
Popular Question to etiennedanis • 0
Popular Question to javier.ruizramirez • 0
Autobiographer to Paul Harrison ▴ 100
Popular Question to mohammedtoufiq91 ▴ 10
Popular Question to Kinnary ▴ 20
Locations • All
United States, 7 minutes ago
United States, 12 minutes ago
UPF, Barcelona, Spain, 2 hours ago
United States, 2 hours ago
WEHI, Melbourne, Australia, 3 hours ago
Traffic: 769 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