Showing : rna • reset
0
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5
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522
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Help with DESeq results to pathways with the fgsea package
fgsea rna
updated 3 months ago by 65k • written 3 months ago by • 0
0
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1
reply
308
views
Running Deseq2 with all samples vs samples for each comparison separately
RNA DESeq2
updated 3 months ago by 42k • written 3 months ago by • 0
0
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2
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1.1k
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt ensembldb RNA ensembl
updated 13 months ago by ★ 2.0k • written 13 months ago by • 0
3
votes
6
replies
2.0k
views
Limma: log2 of TMM values for RNA-Seq Analysis and PlotMDS()?
Log2 edgeR RNA limma Normalization
18 months ago Sara • 0
0
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0
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543
views
Correct GFF3 translation for FeatureCounts
RNASeq FeatureCounts Rna
19 months ago rridley3 • 0
1
vote
1
reply
726
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Confused about design for RNA seq experiment
RNAseq ExperimentData RNAseq123 RNA ExperimentalDesign
updated 20 months ago by ★ 4.1k • written 20 months ago by ▴ 30
0
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0
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792
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Job: Scientist/Senior Scientist – Bioinformatics / Computational Biology
MassSpectrometryData RNA DifferentialExpression
21 months ago António Miguel de Jesus Domingues ▴ 510
0
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2
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844
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Rsubread align --R session aborts
RNA Alignment Rsubread
21 months ago sreekalasn • 0
2
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1
reply
1.0k
views
Error in RNAseq123 analysis, unexpected symbol.
RNAseq123 Rna
updated 23 months ago by 50k • written 23 months ago by • 0
1
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2
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1.6k
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Is it necessary to standardize Combat in R?
RNA Combat sva R
24 months ago takemoto • 0
1
vote
1
reply
788
views
Description of the headers obtained from the Eligos2 output
methylation RNA native epitranscriptomics
updated 2.2 years ago by ▴ 90 • written 2.2 years ago by ▴ 10
0
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1
reply
877
views
Ensembl dataset version
tximport rna rnaseqGene biomaRt
updated 2.4 years ago by ★ 4.1k • written 2.4 years ago by • 0
0
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0
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609
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Cross-cultivar RNA-seq analysis
RNA Normalization
3.1 years ago nancy • 0
0
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4
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1.3k
views
Fitting a continuous variable with batch effect using Limma. Also a question about normalization.
limma edgeR rna
3.1 years ago Nirad ▴ 10
0
votes
3
replies
2.2k
views
Pearson correlation between gene expression and phenotype
edgeR RNASeq
updated 3.5 years ago by 50k • written 3.5 years ago by ▴ 10
4
votes
3
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2.3k
views
How to resolve NAs when annotating a diff gene list with org.Hs.eg.db terms?
annotation rna
updated 3.6 years ago by 65k • written 3.6 years ago by ▴ 20
2
votes
7
replies
1.2k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 4.0 years ago by 65k • written 4.0 years ago by • 0
1
vote
1
reply
796
views
How to interpret coefficients of time course modeled data with DESeq2?
deseq2 RNA
updated 4.1 years ago by 42k • written 4.1 years ago by • 0
0
votes
6
replies
1.3k
views
Bizarre Dispersion Plots
deseq2 RNA RNASeq
updated 4.2 years ago by 42k • written 4.2 years ago by • 0
0
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0
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821
views
Job: Post-doctoral Fellowship at BC Cancer Research Center, Vancouver BC
single cell RNA Data analysis Bioinformatics Job
4.9 years ago jmaanaki • 0
1
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1
reply
1.3k
views
how to filter genes in significant module?
RNA WGCNA filter
4.9 years ago modarzi ▴ 10
0
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2
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892
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DESeq and checkFullRank(modelMatrix)
RNA DESeq2
updated 5.1 years ago by 42k • written 5.1 years ago by ▴ 10
2
votes
1
reply
828
views
DESeq2 statistic and design
deseq2 RNA
updated 5.1 years ago by 42k • written 5.1 years ago by ▴ 10
5
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5
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1.4k
views
Association analysis between gene expression and Phenotype
rna singlecell limma
updated 5.1 years ago by ★ 28k • written 5.1 years ago by ▴ 20
2
votes
3
replies
1.2k
views
Number and percent of mapped reads from RNA seq analysis.
rna-seq rna
updated 5.1 years ago by ★ 13k • written 5.1 years ago by ▴ 20
1
vote
0
replies
952
views
Job: 1 Computational Biologist and 1 Molecular Biologist
computational biology molecular biology RNA r-loop ncRNA Job
5.6 years ago l.brown ▴ 10
0
votes
0
replies
953
views
R code for finding wobble/redundant positions in an RNA string
r code rna wobble
6.3 years ago fawazfebin ▴ 60
0
votes
1
reply
998
views
Time series comparison with DESEQ2
RNA rnaseq deseq2
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 20
0
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1
reply
1.4k
views
RNA sequencing analysis for time point experiment using DeSeq2
deseq2 RNA rnaseq
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 20
1
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1
reply
1.4k
views
Outliers - to remove or to not remove that is the question
outliers rna microarray
updated 7.0 years ago by ▴ 420 • written 7.0 years ago by ▴ 30
5
votes
4
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1.3k
views
Experiment design contrasts any time edgeR
DGE rnaseq RNA edger
updated 7.0 years ago by • 0 • written 7.0 years ago by ▴ 40
3
votes
6
replies
1.9k
views
Regressing effect of treatment on RNA-seq expected count from rsem.
RNA rna-seq science bioinformatics
updated 7.1 years ago by 65k • written 7.1 years ago by ▴ 20
6
votes
5
replies
3.9k
views
Clustering differential expression results from voomWithQualityWeights
RNA limma rsem edgeR
updated 7.1 years ago by 50k • written 7.1 years ago by ▴ 20
0
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0
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1.5k
views
Finding candidate binding sites for RNA binding proteins in R
R bioconductor RNA mRNA RNA binding proteins
7.2 years ago Walter F. Baumann ▴ 10
3
votes
1
reply
1.7k
views
Targeted RNASeq/CaptureSeq DE Analysis
EdgeR deseq2 RNA differential expression
updated 7.7 years ago by ★ 28k • written 7.7 years ago by • 0
0
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4
replies
5.0k
views
RNAseq Adjusting for Covariates?
RNA rnaseq Covariate adjustment deseq
updated 8.2 years ago by 42k • written 8.2 years ago by • 0
0
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2
replies
1.3k
views
Normalizzation indipentent data from RNAAeq experiment
rna normalization
9.6 years ago aristotele_m ▴ 40
37 results • Page 1 of 1
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Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0
Thanks a lot!
Comment: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by Erik Wright ▴ 150
Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa by Matthew Thornton ▴ 360
So it turns out that if the count and the size are the same in 'GOstats", the odds ratio is 'inf'. These are causing the issue. Thank you!!
Votes
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?
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