Showing : r • reset
0
votes
0
replies
128
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
11 weeks ago danalvoronov ▴ 10
0
votes
4
replies
396
views
limma with interaction term
R biostatistics limma Epigenetics
3 months ago • updated 12 weeks ago Jitendra ▴ 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
249
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
0
votes
10
replies
849
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
6 months ago • updated 11 weeks ago ScafioRuo • 0
11
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 ▴ 20
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
640
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 mohammedtoufiq91 ▴ 10
0
votes
1
reply
535
views
Gene enrichment analysis
analysis R GOfuncR
updated 11 months ago by ▴ 730 • written 11 months ago by • 0
0
votes
1
reply
654
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
522
views
DEseq2 Single cell data paired design
R
updated 12 months ago by ▴ 30 • written 13 months ago by • 0
0
votes
4
replies
923
views
Combine RNA-seq
BatchEffect R rnaseq
updated 13 months ago by ★ 1.4k • written 13 months ago by • 0
1
vote
3
replies
890
views
tximport error
tximport r
updated 13 months ago by 42k • written 13 months ago by • 0
1
vote
2
replies
915
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
13 months ago Abdul ▴ 20
0
votes
0
replies
499
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
929
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 • 0
0
votes
13
replies
5.0k
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 13 months ago by • 0 • written 14 months ago by • 0
0
votes
1
reply
753
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
487
views
rDGIdb package: score of the results
rDGIdb r
14 months ago HELEN • 0
2
votes
1
reply
531
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
895
views
how to extract list in quantile in R
R quantile list
14 months ago sat • 0
0
votes
0
replies
586
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
579
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
831
views
how to extract and match information of two filein R
R column match
14 months ago sat • 0
0
votes
0
replies
528
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
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
0
votes
1
reply
746
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
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
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
4
replies
985
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
15 months ago Dr. • 0
0
votes
1
reply
924
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
981
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
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
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
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 11 months ago by 50k • written 17 months ago by ▴ 20
1
vote
2
replies
796
views
Does negative corfit$consensus cause issues while fitting a model in limma
limma R design model.matrix
17 months ago mohammedtoufiq91 ▴ 10
0
votes
2
replies
723
views
ape::dnds produces nan value
R ape dnds nan nanotubes
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
17 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 17 months ago by 3.9k • written 17 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: all variables in design formula must be columns in colData (Deseq2) error by Galina • 0
thank you!
Comment: all variables in design formula must be columns in colData (Deseq2) error by ATpoint ★ 4.1k
coldata_rat <- data.frame(conditions=..., batch=...)
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by robersy • 0
Thank you all for your comments. I will follow your suggestions.
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Hi Michael, thanks a lot for your prompt reply! Not sure if this is appropriate or if you are the right person to ask -- is there anything…
Comment: Numerical differences in DESeq2 output depending on different design matrix cons by Ken C • 0
Well, if I look at genes with baseMean>50, then the relative absolute difference in log2FoldChange (say over the absolute log2FoldChange of…
Votes
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Awards • All
Popular Question to euge.eugenio ▴ 20
Popular Question to Dario Strbenac ★ 1.5k
Popular Question to Vincent J. Carey, Jr. 6.7k
Popular Question to Koen Van den Berge ▴ 180
Popular Question to shepherl 3.9k
Locations • All
United States, 49 minutes ago
India, 1 hour ago
Melbourne, Australia, 1 hour ago
United States, 2 hours ago
United States, 3 hours ago
Traffic: 409 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