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XCMS Data Processing
r xcms metabolomi NTA Metabolomics
updated 7 weeks ago by 68k • written 7 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 12 weeks ago by ★ 4.7k • written 3 months ago by ▴ 10
0
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0
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244
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[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
507
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 6 months ago by 68k • written 6 months ago by • 0
2
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3
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675
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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 11 months ago by • 0 • written 6.1 years ago by • 0
0
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0
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374
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Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
12 months ago danalvoronov ▴ 10
0
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4
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829
views
limma with interaction term
R biostatistics limma Epigenetics
13 months ago • updated 12 months ago Jitendra ▴ 10
0
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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
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5
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2.5k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 10.1 years ago by ▴ 10
0
votes
7
replies
2.2k
views
Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
written 15 months ago by • 0
0
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0
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520
views
multipollutant models
statistics Regression r limma
15 months ago Jitendra ▴ 10
3
votes
4
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1.1k
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
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2.2k
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
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1.4k
views
Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
15 months ago • updated 12 months ago ScafioRuo • 0
12
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10
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14k
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
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2
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971
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq HTSeq R
19 months ago • updated 18 months ago yr542 • 0
1
vote
2
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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
814
views
Gene enrichment analysis
analysis R GOfuncR
updated 20 months ago by ▴ 760 • written 21 months ago by • 0
0
votes
2
replies
1.7k
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
932
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 22 months ago by 52k • written 22 months ago by • 0
0
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1
reply
748
views
DEseq2 Single cell data paired design
R
updated 22 months ago by ▴ 30 • written 22 months ago by • 0
0
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4
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1.5k
views
Combine RNA-seq
BatchEffect R rnaseq
updated 22 months ago by ★ 1.4k • written 22 months ago by • 0
1
vote
3
replies
1.4k
views
tximport error
tximport r
updated 22 months ago by 43k • written 22 months ago by • 0
1
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2
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1.4k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
23 months ago Abdul ▴ 20
0
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0
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744
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
23 months ago aymanreffai • 0
1
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1
reply
2.5k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 23 months ago by ★ 4.1k • written 23 months ago by ▴ 10
0
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4
replies
1.4k
views
Unable to install BiocManager
Biocmanager R
updated 23 months ago by ▴ 50 • written 23 months ago by • 0
1
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1
reply
1.8k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 23 months ago by • 0 • written 24 months ago by • 0
0
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13
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9.7k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
23 months ago Laia ▴ 10
1
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3
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7.0k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 24 months ago by ★ 4.1k • written 2.0 years ago by ▴ 10
0
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1
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1.2k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 24 months ago by ▴ 750 • written 24 months ago by ▴ 10
0
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0
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725
views
rDGIdb package: score of the results
rDGIdb r
24 months ago HELEN • 0
2
votes
1
reply
735
views
add column with name in R
name R column
updated 24 months ago by ▴ 70 • written 24 months ago by • 0
0
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4
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1.5k
views
how to extract list in quantile in R
R quantile list
24 months ago sat • 0
0
votes
0
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994
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
24 months ago Manav • 0
0
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0
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823
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
2.0 years ago Jitendra ▴ 10
3
votes
2
replies
1.3k
views
how to extract and match information of two filein R
R column match
2.0 years ago sat • 0
0
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0
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773
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
2.0 years ago info ▴ 10
0
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17
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2.4k
views
How to check linear model
modalmatrix limma R linear
2.0 years 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 2.0 years ago by 68k • written 2.0 years ago by • 0
0
votes
3
replies
1.7k
views
batch effect in EPIC array data
statistics Epigenetics R
updated 2.0 years ago by ▴ 760 • written 2.0 years 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
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4
replies
1.4k
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
2.1 years ago Dr. • 0
0
votes
1
reply
1.5k
views
Extract Intersection Values from Venn
R Venn
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
2
votes
6
replies
2.4k
views
DMRcate
DMRcate R DMRcatedata Markdown
2.1 years ago yr542 • 0
0
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0
replies
756
views
How to use MeDIPS with BEDPE format input?
R medip-seq MEDIPS
2.1 years ago Luomeng • 0
2
votes
9
replies
1.7k
views
mas5calls function doesn't work; mirna40cdf problem
R Bioconductor mas5calls
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
1
vote
2
replies
3.8k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma R ExpressionData
updated 2.1 years ago by 52k • written 2.1 years ago by • 0
50 results • Page 1 of 1
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Answer: library org.Hs.eg.db failing to install by James W. MacDonald 68k
It should just install. ``` > library(BiocManager) Bioconductor version 3.20 (BiocManager 1.30.25), R 4.4.1 (2024-06-14 ucrt) W…
Comment: Surprising behavior for DEXseq dispersion estimate plot? by Elijah • 0
Thank you so much for your quick reply! I was worried if some underlying technical artifact or unusual behavior would be causing the patter…
Answer: Surprising behavior for DEXseq dispersion estimate plot? by Michael Love 43k
The red points are just slowly moving toward -Inf. They tend to have variance < mean (if it were a simple design and you could just look at…
Answer: DESeq use in lipidomic analysis by Michael Love 43k
I would go for limma rather than a NB-based method. See the papers on limma for metabolomics / proteomics.
Answer: DiffBind - question on the use of filtered or unfiltered input data by robert • 0
[FFH4X][1] Injector is a Free Fire mod menu software that includes a variety of intriguing hack features such as aimbot, auto headshot, fly…
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Answer: Surprising behavior for DEXseq dispersion estimate plot?
Answer: Surprising behavior for DEXseq dispersion estimate plot?
Answer: Surprising behavior for DEXseq dispersion estimate plot?
Calculating TOM in blockwise WGCNA
A: What is the "linear model" part used for in Limma?
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