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XCMS Data Processing
r xcms metabolomi NTA Metabolomics
updated 13 months ago by 68k • written 13 months ago by • 0
6
votes
10
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3.8k
views
What type of counts data to import for performing Isoform analysis in edgeR
limma isoform edgeR salmon R
updated 14 months ago by ★ 5.0k • written 14 months ago by ▴ 10
0
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0
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510
views
[maser] Why does maser coverage filtering ignore skipping counts of an alt. splicing analysis?
rMATS alternativesplicing maser R
16 months ago Anke • 0
1
vote
1
reply
945
views
Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 17 months ago by 68k • written 17 months ago by • 0
2
votes
3
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1.0k
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DeSeq2 Model Problems with species, tissue, and tissue status nesting
DESeq2 R
written 19 months ago by • 0
3
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3
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16k
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How to fix 'long vectors not supported yet' error in R
r
updated 22 months ago by • 0 • written 7.0 years ago by • 0
0
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0
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659
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Issue with shiftGAlignmentsList() in ATACseqQC after updating
R ATACseqQC
23 months ago danalvoronov ▴ 10
0
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4
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1.2k
views
limma with interaction term
R biostatistics limma Epigenetics
2.0 years ago • updated 23 months ago Jitendra ▴ 10
0
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3
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2.5k
views
Error in library(oligo) : package or namespace load failed for ‘oligoClasses’
R oligoClasses Oligoclass Bioconductor Oligo
written 5.0 years ago by • 0
1
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5
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2.9k
views
pd.mogene.2.0st Error Installing in R 3.1.2
oligo microarray r bioconductor
written 11.0 years ago by ▴ 10
0
votes
10
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4.0k
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Easiest way to convert read10xMolInfo data into a dataframe in R with gene labels as row names
tidyverse R SingleCellExperiment SingleCellData
written 2.2 years ago by • 0
0
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0
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754
views
multipollutant models
statistics Regression r limma
2.2 years ago Jitendra ▴ 10
3
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4
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1.5k
views
Is it appropriate to apply linear mixed models to Voom transformed data?
stats r RNASeqData limma voom
2.2 years ago pl23 • 0
1
vote
3
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2.8k
views
Error in the UcscTrack() in package "Gviz"
DMR Methylation R Gviz
updated 2.2 years ago by ▴ 750 • written 4.8 years ago by • 0
0
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10
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2.1k
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Unable to locate BioMart dataset for Dog10K_Boxer_Tasha
R BioMart biomaRt
2.2 years ago • updated 23 months ago ScafioRuo • 0
12
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10
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17k
views
biomaRt not working - lazy table error
error lazy R biomaRt table
updated 23 months ago by • 0 • written 2.3 years ago by ▴ 20
0
votes
2
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1.4k
views
DEXSeqDataSet object DEXSeqDataSetFromHTSeq Error: line number did not have 3 elements
DEXSeq HTSeq R
2.5 years ago • updated 2.4 years ago yr542 • 0
1
vote
2
replies
1.5k
views
biomaRt not retrieving complete list of functional consequences associated with list of SNPs
ensembl R biomaRt
2.6 years ago Miguel • 0
2
votes
5
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2.2k
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Question about RNAseq analysis in EdgeR to identify common and donor specific differentially expressed genes
R edgeR RNASeq
2.6 years ago mohammedtoufiq91 ▴ 10
0
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1
reply
1.1k
views
Gene enrichment analysis
analysis R GOfuncR
updated 2.7 years ago by ▴ 760 • written 2.7 years ago by • 0
0
votes
2
replies
2.0k
views
Trouble Loading Data into Champ
loaddata ChAMPdata champload R ChAMP
updated 2.7 years ago by • 0 • written 5.0 years ago by • 0
0
votes
1
reply
1.2k
views
Subtype specific differential expression analysis
R limmaGUI edgeR limma regutools
updated 2.8 years ago by 53k • written 2.8 years ago by • 0
0
votes
1
reply
935
views
DEseq2 Single cell data paired design
R
updated 2.8 years ago by ▴ 30 • written 2.8 years ago by • 0
0
votes
4
replies
1.9k
views
Combine RNA-seq
BatchEffect R rnaseq
updated 2.8 years ago by ★ 1.4k • written 2.8 years ago by • 0
1
vote
3
replies
1.8k
views
tximport error
tximport r
updated 2.8 years ago by 43k • written 2.8 years ago by • 0
1
vote
2
replies
1.9k
views
Filter by expression and keep probes in limma
R filter limma Normalization Microarray
2.8 years ago Abdul ▴ 20
0
votes
0
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978
views
Are LFQ workflow arguments from DEP package all required or optional?
LFQ R DEP error
2.8 years ago aymanreffai • 0
1
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1
reply
3.7k
views
Error with Pathview: Bad Request (HTTP 400)
KEGGREST pathview R
updated 2.8 years ago by ★ 4.1k • written 2.8 years ago by ▴ 10
0
votes
4
replies
1.9k
views
Unable to install BiocManager
Biocmanager R
updated 2.8 years ago by ▴ 50 • written 2.8 years ago by • 0
1
vote
1
reply
2.3k
views
Error in h5checktype(). H5Identifier not valid.
rhdf5 rhdf r
updated 2.9 years ago by • 0 • written 2.9 years ago by • 0
0
votes
13
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15k
views
KEGG enrichment in R and gene IDs
KEGG enrichKEGG R entrezid
2.9 years ago Laia ▴ 10
1
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3
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9.2k
views
Reduce the number of nodes appear in the cnetplot of clusterprofiler
cnetplot R clusterProfiler
updated 2.9 years ago by ★ 4.1k • written 3.0 years ago by ▴ 10
0
votes
1
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1.8k
views
scRNAseq package and cell type annotations
ExperimentHub R ExperimentHubData scRNAseq SingleR
updated 2.9 years ago by ▴ 760 • written 2.9 years ago by ▴ 10
0
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0
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924
views
rDGIdb package: score of the results
rDGIdb r
2.9 years ago HELEN • 0
2
votes
1
reply
960
views
add column with name in R
name R column
updated 2.9 years ago by ▴ 70 • written 2.9 years ago by • 0
0
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4
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2.1k
views
how to extract list in quantile in R
R quantile list
2.9 years ago sat • 0
0
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0
replies
1.4k
views
KM Plot for gene of interest (e.g. TP53) using TCGA-PAAD dataset
Survival TCGAbiolinks R PAAD
2.9 years ago Manav • 0
0
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0
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1.1k
views
How to find regulatory region position and associated genes for CpG sites
Epigenetics R Bioconducter
3.0 years ago Jitendra ▴ 10
3
votes
2
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1.7k
views
how to extract and match information of two filein R
R column match
3.0 years ago sat • 0
0
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0
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1.1k
views
News: Course - R/BIOCONDUCTOR FOR MASS SPECTROMETRY AND PROTEOMICS
Proteomics R Bioconductor MassSpectrometry
3.0 years ago info ▴ 10
0
votes
17
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3.1k
views
How to check linear model
modalmatrix limma R linear
3.0 years ago Jitendra ▴ 10
0
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1
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1.3k
views
customised help function in argparse() in R
command-line R command-line-arguments argparse()
updated 3.0 years ago by 68k • written 3.0 years ago by • 0
0
votes
3
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2.3k
views
batch effect in EPIC array data
statistics Epigenetics R
updated 3.0 years ago by ▴ 760 • written 3.0 years ago by ▴ 10
1
vote
2
replies
1.8k
views
Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
3.0 years ago abhisek001 • 0
0
votes
4
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1.8k
views
Write an annotated DESEQ2 counts CSV, pls help.
DESeq2 biomaRt R
3.0 years ago Dr. • 0
0
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1
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2.4k
views
Extract Intersection Values from Venn
R Venn
updated 3.0 years ago by 68k • written 3.0 years ago by • 0
2
votes
6
replies
3.0k
views
DMRcate
DMRcate R DMRcatedata Markdown
3.0 years ago yr542 • 0
0
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0
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974
views
How to use MeDIPS with BEDPE format input?
R medip-seq MEDIPS
3.0 years ago Luomeng • 0
2
votes
9
replies
2.3k
views
mas5calls function doesn't work; mirna40cdf problem
R Bioconductor mas5calls
updated 3.0 years ago by 68k • written 3.0 years ago by • 0
1
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2
replies
5.3k
views
R: Confused about Limma R package output being LogFC or Log2FC
limma R ExpressionData
updated 3.0 years ago by 53k • written 3.1 years ago by • 0
1,163 results • Page 1 of 24
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Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Korneel • 0
Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…
Comment: Pathway abundance data from Curatedmetagenomics by yesquokkan • 0
Hello, I was also wondering about the same issue. Did you figure it out?
Comment: [DESeq2] Changing dispersion estimates between runs of DESeq2 by colinmccornack • 0
FWIW: This seems to be due to architectural differences between two compute nodes I was running on, specifically with the DESeq2:::fitNbino…
Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Erik Wright ▴ 160
This has to do with the fact that some taxonomies reuse names at the same rank level. Common examples in the SILVA taxonomy are "Incertae S…
Comment: Deseq2 DE analysis of host-pathogen samples (model separately or jointly?) by a2a2ddrhaa • 0
For those taking a break from the lab, the CT777 Game download https://ct7777.pk/ offers a high-performance entry into online mobile gaming…
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Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name
Answer: Can you colour dendrogram branch clusters in pheatmap?
Comment: Are transformed values from rlog /vst log2 normalized counts?
Are transformed values from rlog /vst log2 normalized counts?
Answer: Bulk RNAseq analysis for
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