Showing : r • reset
0
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137
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[maser] Why does maser coverage filtering ignore skipping counts of an alt. splicing analysis?
rMATS alternativesplicing maser R
5 weeks ago Anke • 0
1
vote
1
reply
364
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 10 weeks ago by 67k • written 11 weeks ago by • 0
2
votes
3
replies
550
views
DeSeq2 Model Problems with species, tissue, and tissue status nesting
DESeq2 R
written 4 months ago by • 0
3
votes
3
replies
14k
views
How to fix 'long vectors not supported yet' error in R
r
updated 7 months ago by • 0 • written 5.8 years ago by • 0
0
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0
replies
302
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
8 months ago danalvoronov ▴ 10
0
votes
4
replies
675
views
limma with interaction term
R biostatistics limma Epigenetics
9 months ago • updated 8 months ago Jitendra ▴ 10
0
votes
3
replies
1.9k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
written 3.7 years ago by • 0
1
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5
replies
2.4k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 9.8 years ago by ▴ 10
0
votes
6
replies
1.7k
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
updated 6 days ago by • 0 • written 11 months ago by • 0
0
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0
replies
459
views
multipollutant models
statistics Regression r limma
11 months ago Jitendra ▴ 10
3
votes
4
replies
916
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
12 months ago • updated 11 months ago pl23 • 0
1
vote
3
replies
1.9k
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 12 months ago by ▴ 750 • written 3.5 years ago by • 0
0
votes
10
replies
1.3k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
12 months ago • updated 8 months ago ScafioRuo • 0
12
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10
replies
12k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 8 months ago by • 0 • written 12 months ago by ▴ 20
0
votes
2
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832
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq HTSeq R
15 months ago • updated 14 months ago yr542 • 0
1
vote
2
replies
942
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
16 months ago Miguel • 0
2
votes
5
replies
1.7k
views
Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
R edgeR RNASeq
16 months ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
726
views
Gene enrichment analysis
analysis R GOfuncR
updated 17 months ago by ▴ 760 • written 17 months ago by • 0
0
votes
2
replies
1.5k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 17 months ago by • 0 • written 3.7 years ago by • 0
0
votes
1
reply
845
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 18 months ago by 51k • written 18 months ago by • 0
0
votes
1
reply
676
views
DEseq2 Single cell data paired design
R
updated 19 months ago by ▴ 30 • written 19 months ago by • 0
0
votes
4
replies
1.3k
views
Combine RNA-seq
BatchEffect R rnaseq
updated 19 months ago by ★ 1.4k • written 19 months ago by • 0
1
vote
3
replies
1.2k
views
tximport error
tximport r
updated 19 months ago by 42k • written 19 months ago by • 0
1
vote
2
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1.2k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
19 months ago Abdul ▴ 20
0
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0
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667
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
19 months ago aymanreffai • 0
1
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1
reply
1.9k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 19 months ago by ★ 4.1k • written 19 months ago by ▴ 10
0
votes
4
replies
1.2k
views
Unable to install BiocManager
Biocmanager R
updated 19 months ago by ▴ 50 • written 19 months ago by • 0
1
vote
1
reply
1.7k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 20 months ago by • 0 • written 20 months ago by • 0
0
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13
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7.5k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
20 months ago Laia ▴ 10
1
vote
3
replies
5.9k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 20 months ago by ★ 4.1k • written 21 months ago by ▴ 10
0
votes
1
reply
1.1k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 20 months ago by ▴ 740 • written 20 months ago by ▴ 10
0
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0
replies
655
views
rDGIdb package: score of the results
rDGIdb r
20 months ago HELEN • 0
2
votes
1
reply
667
views
add column with name in R
name R column
updated 20 months ago by ▴ 70 • written 20 months ago by • 0
0
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4
replies
1.3k
views
how to extract list in quantile in R
R quantile list
20 months ago sat • 0
0
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0
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852
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
20 months ago Manav • 0
0
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0
replies
739
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
20 months ago Jitendra ▴ 10
3
votes
2
replies
1.1k
views
how to extract and match information of two filein R
R column match
20 months ago sat • 0
0
votes
0
replies
698
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
20 months ago info ▴ 10
0
votes
17
replies
2.1k
views
How to check linear model
modalmatrix limma R linear
21 months ago • updated 20 months ago Jitendra ▴ 10
0
votes
1
reply
952
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 21 months ago by 67k • written 21 months ago by • 0
0
votes
3
replies
1.4k
views
batch effect in EPIC array data
statistics Epigenetics R
updated 21 months ago by ▴ 760 • written 21 months ago by ▴ 10
1
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2
replies
1.1k
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
21 months ago abhisek001 • 0
0
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4
replies
1.2k
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
21 months ago Dr. • 0
0
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1
reply
1.3k
views
Extract Intersection Values from Venn
R Venn
updated 21 months ago by 67k • written 21 months ago by • 0
2
votes
6
replies
2.2k
views
DMRcate
DMRcate R DMRcatedata Markdown
21 months ago yr542 • 0
0
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0
replies
692
views
How to use MeDIPS with BEDPE format input?
R medip-seq MEDIPS
21 months ago Luomeng • 0
2
votes
9
replies
1.5k
views
mas5calls function doesn't work; mirna40cdf problem
R Bioconductor mas5calls
updated 21 months ago by 67k • written 21 months ago by • 0
1
vote
2
replies
3.1k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma R ExpressionData
updated 21 months ago by 51k • written 22 months ago by • 0
0
votes
3
replies
1.3k
views
Error when using "readTranscriptFeatures" in "Genomation" R package for loading the bed file
readTranscriptFeatures R genomation bed
updated 22 months ago by 67k • written 22 months ago by • 0
0
votes
1
reply
820
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 22 months ago by 51k • written 22 months ago by • 0
50 results • Page 1 of 1
Recent ...
Replies
Comment: [How to construct a model.matrix ] by kyj2226 • 0
Thanks to you, I learn a lot. Many thanks, Yujin.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0
thank you for your advice, I posted separate post.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by Robert Castelo ★ 3.4k
Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…
Answer: DESeq2 rerun returns different results by ATpoint ★ 4.5k
DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…
Answer: [How to construct a model.matrix ] by Gordon Smyth 51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Votes
Answer: [How to construct a model.matrix ]
C: DESeq2 baseMean values for each sample
C: DESeq2 baseMean values for each sample
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
A: Some questions for remove batch effect by using mnnCorrect
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Scholar to ATpoint ★ 4.5k
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