Showing : rna • reset
2
votes
7
replies
1.2k
views
Affycoretools package, HTA 2.0 annotation for non-coding RNA
affy rna hta2.0 r
updated 3.9 years ago by 65k • written 3.9 years ago by • 0
0
votes
6
replies
1.2k
views
Bizarre Dispersion Plots
deseq2 RNA RNASeq
updated 4.1 years ago by 41k • written 4.1 years ago by • 0
3
votes
6
replies
1.9k
views
Limma: log2 of TMM values for RNA-Seq Analysis and PlotMDS()?
Log2 edgeR RNA limma Normalization
17 months ago Sara • 0
3
votes
6
replies
1.9k
views
Regressing effect of treatment on RNA-seq expected count from rsem.
RNA rna-seq science bioinformatics
updated 7.0 years ago by 65k • written 7.0 years ago by ▴ 20
6
votes
5
replies
3.8k
views
Clustering differential expression results from voomWithQualityWeights
RNA limma rsem edgeR
updated 7.0 years ago by 50k • written 7.0 years ago by ▴ 20
5
votes
5
replies
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
0
votes
5
replies
445
views
Help with DESeq results to pathways with the fgsea package
fgsea rna
updated 9 weeks ago by 65k • written 10 weeks ago by • 0
5
votes
4
replies
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
0
votes
4
replies
5.0k
views
RNAseq Adjusting for Covariates?
RNA rnaseq Covariate adjustment deseq
updated 8.2 years ago by 41k • written 8.2 years ago by • 0
0
votes
4
replies
1.3k
views
Fitting a continuous variable with batch effect using Limma. Also a question about normalization.
limma edgeR rna
3.0 years ago Nirad ▴ 10
4
votes
3
replies
2.2k
views
How to resolve NAs when annotating a diff gene list with org.Hs.eg.db terms?
annotation rna
updated 3.5 years ago by 65k • written 3.5 years ago by ▴ 20
0
votes
3
replies
2.2k
views
Pearson correlation between gene expression and phenotype
edgeR RNASeq
updated 3.4 years ago by 50k • written 3.4 years ago by ▴ 10
2
votes
3
replies
1.1k
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
0
votes
2
replies
1.0k
views
Access Ensembl GRCH38 Version 87 Using BiomaRt
biomaRt ensembldb RNA ensembl
updated 12 months ago by ★ 2.0k • written 12 months ago by • 0
0
votes
2
replies
878
views
DESeq and checkFullRank(modelMatrix)
RNA DESeq2
updated 5.0 years ago by 41k • written 5.0 years ago by ▴ 10
0
votes
2
replies
823
views
Rsubread align --R session aborts
RNA Alignment Rsubread
20 months ago sreekalasn • 0
1
vote
2
replies
1.6k
views
Is it necessary to standardize Combat in R?
RNA Combat sva R
23 months ago takemoto • 0
0
votes
2
replies
1.3k
views
Normalizzation indipentent data from RNAAeq experiment
rna normalization
9.6 years ago aristotele_m ▴ 40
3
votes
1
reply
1.6k
views
Targeted RNASeq/CaptureSeq DE Analysis
EdgeR deseq2 RNA differential expression
updated 7.6 years ago by ★ 28k • written 7.6 years ago by • 0
1
vote
1
reply
693
views
Confused about design for RNA seq experiment
RNAseq ExperimentData RNAseq123 RNA ExperimentalDesign
updated 19 months ago by ★ 4.0k • written 19 months ago by ▴ 30
0
votes
1
reply
1.4k
views
RNA sequencing analysis for time point experiment using DeSeq2
deseq2 RNA rnaseq
updated 6.7 years ago by 41k • written 6.7 years ago by ▴ 20
2
votes
1
reply
813
views
DESeq2 statistic and design
deseq2 RNA
updated 5.0 years ago by 41k • written 5.0 years ago by ▴ 10
2
votes
1
reply
1000
views
Error in RNAseq123 analysis, unexpected symbol.
RNAseq123 Rna
updated 22 months ago by 50k • written 22 months ago by • 0
1
vote
1
reply
1.3k
views
how to filter genes in significant module?
RNA WGCNA filter
4.8 years ago modarzi ▴ 10
0
votes
1
reply
264
views
Running Deseq2 with all samples vs samples for each comparison separately
RNA DESeq2
updated 3 months ago by 41k • written 3 months ago by • 0
0
votes
1
reply
858
views
Ensembl dataset version
tximport rna rnaseqGene biomaRt
updated 2.3 years ago by ★ 4.0k • written 2.3 years ago by • 0
1
vote
1
reply
1.3k
views
Outliers - to remove or to not remove that is the question
outliers rna microarray
updated 6.9 years ago by ▴ 420 • written 6.9 years ago by ▴ 30
1
vote
1
reply
774
views
Description of the headers obtained from the Eligos2 output
methylation RNA native epitranscriptomics
updated 2.1 years ago by ▴ 90 • written 2.1 years ago by ▴ 10
1
vote
1
reply
775
views
How to interpret coefficients of time course modeled data with DESeq2?
deseq2 RNA
updated 4.0 years ago by 41k • written 4.0 years ago by • 0
0
votes
1
reply
978
views
Time series comparison with DESEQ2
RNA rnaseq deseq2
updated 6.7 years ago by 41k • written 6.7 years ago by ▴ 20
0
votes
0
replies
808
views
Job: Post-doctoral Fellowship at BC Cancer Research Center, Vancouver BC
single cell RNA Data analysis Bioinformatics Job
4.8 years ago jmaanaki • 0
0
votes
0
replies
930
views
R code for finding wobble/redundant positions in an RNA string
r code rna wobble
6.2 years ago fawazfebin ▴ 60
0
votes
0
replies
1.5k
views
Finding candidate binding sites for RNA binding proteins in R
R bioconductor RNA mRNA RNA binding proteins
7.1 years ago Walter F. Baumann ▴ 10
0
votes
0
replies
521
views
Correct GFF3 translation for FeatureCounts
RNASeq FeatureCounts Rna
18 months ago rridley3 • 0
0
votes
0
replies
763
views
Job: Scientist/Senior Scientist – Bioinformatics / Computational Biology
MassSpectrometryData RNA DifferentialExpression
20 months ago António Miguel de Jesus Domingues ▴ 490
0
votes
0
replies
584
views
Cross-cultivar RNA-seq analysis
RNA Normalization
3.0 years ago nancy • 0
1
vote
0
replies
931
views
Job: 1 Computational Biologist and 1 Molecular Biologist
computational biology molecular biology RNA r-loop ncRNA Job
5.5 years ago l.brown ▴ 10
37 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2 output used for PCA plot on R studio by Aaliya • 0
How am i making the data? I am using the DESeq2 output data which I had generated
Answer: Use of negative binomial model for exponential decay rate estimation using DESeq by Michael Love 41k
Sounds reasonable. For ranking genes, you could choose those with low decay rate but removing thoses where it is indistinguishable from …
Answer: Citation for edgeR user guide by Gordon Smyth 50k
Thanks for thinking about how to cite edgeR. Citations are indeed the main way by which the edgeR authors get credit for their work. The Us…
Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k
You are just making up data? What is the point of this exercise?
Comment: How to retrieve gene ontology GO class? by James W. MacDonald 65k
What do you mean by 'the information'? Do you have things in particular that you want?
Votes
Answer: Citation for edgeR user guide
Use of negative binomial model for exponential decay rate estimation using DESeq (or similar)
Answer: How to correct for age, sex, etc. from an RNA-seq data in DESeq2.
Answer: minfi::read.metharray.exp
Comment: Trying to use enrichGO
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