Showing : r • reset
0
votes
0
replies
136
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
12 weeks ago danalvoronov ▴ 10
0
votes
4
replies
400
views
limma with interaction term
R biostatistics limma Epigenetics
3 months ago Jitendra ▴ 10
0
votes
3
replies
530
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
261
views
multipollutant models
statistics Regression r limma
5 months ago Jitendra ▴ 10
3
votes
4
replies
573
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
6 months ago pl23 • 0
0
votes
10
replies
863
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
6 months ago • updated 12 weeks ago ScafioRuo • 0
11
votes
10
replies
7.6k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 9 weeks ago by • 0 • written 7 months ago by ▴ 20
0
votes
2
replies
590
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
654
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
10 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 mohammedtoufiq91 ▴ 10
0
votes
1
reply
538
views
Gene enrichment analysis
analysis R GOfuncR
updated 11 months ago by ▴ 730 • written 11 months ago by • 0
0
votes
1
reply
658
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 13 months ago by 50k • written 13 months ago by • 0
0
votes
1
reply
530
views
DEseq2 Single cell data paired design
R
updated 13 months ago by ▴ 30 • written 13 months ago by • 0
0
votes
4
replies
936
views
Combine RNA-seq
BatchEffect R rnaseq
updated 13 months ago by ★ 1.4k • written 13 months ago by • 0
1
vote
3
replies
909
views
tximport error
tximport r
updated 13 months ago by 42k • written 13 months ago by • 0
1
vote
2
replies
919
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
13 months ago Abdul ▴ 20
0
votes
0
replies
501
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
13 months ago aymanreffai • 0
0
votes
4
replies
941
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 with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 13 months ago by ★ 4.0k • written 13 months ago by ▴ 10
0
votes
13
replies
5.1k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
14 months ago Laia ▴ 10
1
vote
1
reply
1.3k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 14 months ago by • 0 • written 14 months ago by • 0
0
votes
1
reply
759
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
497
views
rDGIdb package: score of the results
rDGIdb r
14 months ago HELEN • 0
2
votes
1
reply
534
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
903
views
how to extract list in quantile in R
R quantile list
14 months ago sat • 0
0
votes
0
replies
603
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
582
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
15 months ago Jitendra ▴ 10
3
votes
2
replies
846
views
how to extract and match information of two filein R
R column match
15 months ago sat • 0
0
votes
0
replies
532
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
15 months ago info ▴ 10
0
votes
17
replies
1.7k
views
How to check linear model
modalmatrix limma R linear
15 months ago Jitendra ▴ 10
0
votes
3
replies
1.0k
views
batch effect in EPIC array data
statistics Epigenetics R
updated 15 months ago by ▴ 730 • written 15 months ago by ▴ 10
0
votes
1
reply
750
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 15 months ago by 66k • written 15 months ago by • 0
1
vote
2
replies
870
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
15 months ago abhisek001 • 0
0
votes
3
replies
4.1k
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
4
replies
989
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
15 months ago Dr. • 0
0
votes
1
reply
944
views
Extract Intersection Values from Venn
R Venn
updated 15 months ago by 66k • written 15 months ago by • 0
2
votes
6
replies
1.8k
views
DMRcate
DMRcate R DMRcatedata Markdown
15 months ago yr542 • 0
0
votes
0
replies
550
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 66k • written 15 months ago by • 0
0
votes
2
replies
1.9k
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
998
views
Error when using "readTranscriptFeatures" in "Genomation" R package for loading the bed file
readTranscriptFeatures R genomation bed
updated 16 months ago by 66k • written 16 months ago by • 0
0
votes
1
reply
662
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
4
votes
6
replies
1.2k
views
Question on creating right design matrix in edgeR
R designmatrix edgeR limma model.matrix
17 months ago Abdul ▴ 20
0
votes
1
reply
678
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
0
votes
3
replies
1.1k
views
Problem with multiple sequence alignment using AlignSeqs
R dada2 DECIPHER
updated 17 months ago by ▴ 150 • written 17 months ago by • 0
4
votes
8
replies
2.2k
views
Can we use rlog or vst data values in limma for differential expression analysis?
DESeq2 limma Normalization R
updated 12 months ago by 50k • written 18 months ago by ▴ 20
1
vote
2
replies
803
views
Does negative corfit$consensus cause issues while fitting a model in limma
limma R design model.matrix
18 months ago mohammedtoufiq91 ▴ 10
0
votes
2
replies
730
views
ape::dnds produces nan value
R ape dnds nan nanotubes
18 months ago • updated 17 months ago Working • 0
2
votes
4
replies
3.6k
views
Possibility of using TPM or FPKM values in edgeR for differential expression analysis?
DESeq2 R edgeR Normalization RNASeq
18 months ago mohammedtoufiq91 ▴ 10
1
vote
7
replies
1.5k
views
query regarding error in installation of "goseq" R bioconductor package
R Bioconductor Install
updated 18 months ago by 3.9k • written 18 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: Volcano plot of scRNA-seq data not "centered" by ATpoint ★ 4.2k
My comment was generic. If your experiment causes drastic shifts then the situation might be different. The advise is the same: Try to use …
Comment: conumee with Infinium MethylationEPIC v2.0 by Maximus • 0
Hi Sole, If there is a combined mixture of MSet of 450K, EPIC and EPICv2, how should I create an annotation object? I tried to create anno…
Comment: Volcano plot of scRNA-seq data not "centered" by tjl • 0
Thank you both. The code is below, simplified a bit for simplicity. ATpoint, your suggestion re: the top 20% of genes by baseMean makes me …
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
Wait a minute. The `oligo` package is *supposed to* be using `zlibbioc`, but apparently it is not. I get the same thing as you do, where it…
Comment: Cannot install oligo on Fedora by James W. MacDonald 66k
There is the `zlibbioc` package that provides the headers for zlib 1.2.5, that I think you should be able to use, although that would requi…
Votes
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
DESeq2 swap ensembl gene id rownames with gene symbol column
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
DESeq2: add annotations (from data frame) to DESeqDataSet
Add new columns to DESeqResults from text file by matching rownames.
Awards • All
Popular Question to Robert Castelo ★ 3.3k
Popular Question to kevin.rue ▴ 350
Popular Question to Wei Shi ★ 3.6k
Popular Question to Gordon Smyth 50k
Popular Question to jovel_juan ▴ 30
Locations • All
India, just now
UPF, Barcelona, Spain, 3 minutes ago
United Kingdom, 12 minutes ago
Bangladesh, 20 minutes ago
Hong Kong, 39 minutes ago
Traffic: 442 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