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XCMS Data Processing
r xcms metabolomi NTA Metabolomics
updated 4 weeks ago by 68k • written 5 weeks ago by • 0
6
votes
10
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2.7k
views
What type of counts data to import for performing Isoform analysis in edgeR
limma isoform edgeR salmon R
updated 10 weeks ago by ★ 4.7k • written 11 weeks ago by ▴ 10
0
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0
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231
views
[maser] Why does maser coverage filtering ignore skipping counts of an alt. splicing analysis?
rMATS alternativesplicing maser R
4 months ago Anke • 0
1
vote
1
reply
484
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 5 months ago by 68k • written 5 months ago by • 0
2
votes
3
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653
views
DeSeq2 Model Problems with species, tissue, and tissue status nesting
DESeq2 R
written 7 months ago by • 0
3
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3
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15k
views
How to fix 'long vectors not supported yet' error in R
r
updated 10 months ago by • 0 • written 6.0 years ago by • 0
0
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0
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362
views
Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
11 months ago danalvoronov ▴ 10
0
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4
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807
views
limma with interaction term
R biostatistics limma Epigenetics
12 months ago • updated 11 months ago Jitendra ▴ 10
0
votes
3
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2.1k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
written 4.0 years ago by • 0
1
vote
5
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2.5k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 10.0 years ago by ▴ 10
0
votes
7
replies
2.1k
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
written 14 months ago by • 0
0
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0
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507
views
multipollutant models
statistics Regression r limma
14 months ago Jitendra ▴ 10
3
votes
4
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1.0k
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
15 months ago pl23 • 0
1
vote
3
replies
2.1k
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 15 months ago by ▴ 750 • written 3.8 years ago by • 0
0
votes
10
replies
1.4k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
15 months ago • updated 11 months ago ScafioRuo • 0
12
votes
10
replies
13k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 11 months ago by • 0 • written 16 months ago by ▴ 20
0
votes
2
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943
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq HTSeq R
18 months ago • updated 17 months ago yr542 • 0
1
vote
2
replies
1.1k
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
19 months ago Miguel • 0
2
votes
5
replies
1.8k
views
Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
R edgeR RNASeq
19 months ago mohammedtoufiq91 ▴ 10
0
votes
1
reply
799
views
Gene enrichment analysis
analysis R GOfuncR
updated 20 months ago by ▴ 760 • written 20 months ago by • 0
0
votes
2
replies
1.6k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 21 months ago by • 0 • written 4.0 years ago by • 0
0
votes
1
reply
917
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 21 months ago by 52k • written 22 months ago by • 0
0
votes
1
reply
735
views
DEseq2 Single cell data paired design
R
updated 22 months ago by ▴ 30 • written 22 months ago by • 0
0
votes
4
replies
1.4k
views
Combine RNA-seq
BatchEffect R rnaseq
updated 22 months ago by ★ 1.4k • written 22 months ago by • 0
1
vote
3
replies
1.3k
views
tximport error
tximport r
updated 22 months ago by 43k • written 22 months ago by • 0
1
vote
2
replies
1.3k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
22 months ago Abdul ▴ 20
0
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0
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734
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
22 months ago aymanreffai • 0
1
vote
1
reply
2.4k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 22 months ago by ★ 4.1k • written 22 months ago by ▴ 10
0
votes
4
replies
1.3k
views
Unable to install BiocManager
Biocmanager R
updated 22 months ago by ▴ 50 • written 22 months ago by • 0
1
vote
1
reply
1.8k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 23 months ago by • 0 • written 23 months ago by • 0
0
votes
13
replies
9.3k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
23 months ago Laia ▴ 10
1
vote
3
replies
6.8k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 23 months ago by ★ 4.1k • written 2.0 years ago by ▴ 10
0
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1
reply
1.2k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 23 months ago by ▴ 750 • written 23 months ago by ▴ 10
0
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0
replies
713
views
rDGIdb package: score of the results
rDGIdb r
23 months ago HELEN • 0
2
votes
1
reply
724
views
add column with name in R
name R column
updated 23 months ago by ▴ 70 • written 23 months ago by • 0
0
votes
4
replies
1.4k
views
how to extract list in quantile in R
R quantile list
23 months ago sat • 0
0
votes
0
replies
960
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
23 months ago Manav • 0
0
votes
0
replies
805
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
23 months ago Jitendra ▴ 10
3
votes
2
replies
1.2k
views
how to extract and match information of two filein R
R column match
24 months ago sat • 0
0
votes
0
replies
763
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
24 months ago info ▴ 10
0
votes
17
replies
2.3k
views
How to check linear model
modalmatrix limma R linear
24 months ago • updated 23 months ago Jitendra ▴ 10
0
votes
1
reply
1.0k
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 24 months ago by 68k • written 24 months ago by • 0
0
votes
3
replies
1.6k
views
batch effect in EPIC array data
statistics Epigenetics R
updated 24 months ago by ▴ 760 • written 24 months ago by ▴ 10
1
vote
2
replies
1.3k
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
2.0 years ago abhisek001 • 0
0
votes
4
replies
1.4k
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
2.0 years ago Dr. • 0
0
votes
1
reply
1.4k
views
Extract Intersection Values from Venn
R Venn
updated 2.0 years ago by 68k • written 2.0 years ago by • 0
2
votes
6
replies
2.4k
views
DMRcate
DMRcate R DMRcatedata Markdown
2.0 years ago yr542 • 0
0
votes
0
replies
744
views
How to use MeDIPS with BEDPE format input?
R medip-seq MEDIPS
2.0 years ago Luomeng • 0
2
votes
9
replies
1.7k
views
mas5calls function doesn't work; mirna40cdf problem
R Bioconductor mas5calls
updated 2.0 years ago by 68k • written 2.0 years ago by • 0
1
vote
2
replies
3.7k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma R ExpressionData
updated 2.0 years ago by 52k • written 2.1 years ago by • 0
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Comment: For some reason I can't update BiocManager to 3.20 by shepherl 4.1k
It seems likely this was installed as an admin account and a user account would not be able to update. Someone with admin access should run…
Answer: UniProt.ws query for single UniRef90 ID takes several minutes by James W. MacDonald 68k
Any query over the internet can vary in the time to completion due to the vagaries of the connection you may have. I just tried your query …
Answer: batch effect removal for agilent microarray data by James W. MacDonald 68k
If all of the samples in group 155 are one type, and all the other samples in 438 are the other, then no. The biological and technical vari…
Answer: Automatically install dependencies by shepherl 4.1k
Since `BiocManager::install` is a wrapper around `install.packages` you should be able to use the dependencies argument. Default is the de…
Comment: For some reason I can't update BiocManager to 3.20 by azm.ana2 • 0
Sorry i apologize for the delay. Thank you very much for the answer. I have two supervisers and the one who knows about the computer is com…
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Answer: UniProt.ws query for single UniRef90 ID takes several minutes
A: How to extract DESeq2 results for an interaction design
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
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