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2
votes
1
answer
47
views
1
answer
The calculation of regularized logarithm
rnaseq deseq2 written 2 days ago by Yuya Liang • 0 • updated 2 days ago by Michael Love ♦ 18k
0
votes
1
answer
27
views
1
answer
Interactions and contrasts for DE analysis in ballgown
rnaseq R interactions de ballgown written 3 days ago by khill33 • 0 • updated 3 days ago by James W. MacDonald ♦ 46k
0
votes
0
answers
21
views
0
answers
Job: Postdoctoral position, T follicular helper cell transcriptomics
rnaseq job single cell immunology t cells tfh cells written 3 days ago by michela.locci • 0
0
votes
0
answers
27
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0
answers
Job: Post-doc in Prostate Cancer Research (Statistics / Computational Biology) at University of St Andrews (+PhD position also available)
sequencing rnaseq smallrna cancer job methylation written 3 days ago by Andy Lynch • 100
2
votes
1
answer
46
views
1
answer
Compare effect size of gene (lfcShrink or not)
rnaseq deseq2 written 4 days ago by Yuya Liang • 0 • updated 4 days ago by Michael Love ♦ 18k
6
votes
2
answers
151
views
2
answers
Differentially expressed genes selection with FC and FDR cutoff
rnaseq edger R bioconductor written 6 days ago by Beginner • 0 • updated 4 days ago by Gordon Smyth ♦ 33k
1
vote
1
answer
49
views
1
answer
very different DESeq2 results between two versions
rnaseq deseq2 written 5 days ago by sven.schenk • 10
0
votes
1
answer
50
views
1
answer
Error in DESeq2 Unmix() function: L-BFGS-B needs finite values of 'fn'
rnaseq deseq2 deconvolution written 9 days ago by jennyl.smith12 • 0 • updated 9 days ago by Michael Love ♦ 18k
4
votes
1
answer
87
views
1
answer
Applying varianceStabilizingTransformation to log transformed RNA seq data from cBioPortal
rnaseq deseq2 variancestabilizingtransformation cbioportal written 12 days ago by Ben Morris • 0 • updated 12 days ago by Sander Tan • 20
0
votes
0
answers
49
views
0
answers
Ballgown normalisation... why are still using FPKM?
rnaseq normalization differential expression differential gene expression written 17 days ago by manuelmendoza • 0
2
votes
1
answer
118
views
1
answer
ASE using DESeq2
rnaseq normalization deseq deseq2 allele specific expression written 19 days ago by c.martinezruiz • 0 • updated 18 days ago by Simon Anders • 3.5k
1
vote
1
answer
95
views
1
answer
DESeq2 with CIBERSORT cell proportions?
rnaseq deseq2 written 23 days ago by cartalop • 0 • updated 23 days ago by Michael Love ♦ 18k
4
votes
2
answers
101
views
2
answers
scaling data for clustering heat map
rnaseq clustering edger differential gene expression heatmap written 24 days ago by Beginner • 0 • updated 23 days ago by Gordon Smyth ♦ 33k
2
votes
1
answer
79
views
1
answer
DESeq2 : normalized counts
rnaseq deseq2 normalized counts written 24 days ago by JoannaF • 0 • updated 24 days ago by Michael Love ♦ 18k
1
vote
2
answers
181
views
2
answers
Comparing means of VST tranformed RNA-Seq counts in different groups of samples with boxplots
rnaseq deseq2 boxplot vst written 28 days ago by yeles.konstantinos • 10 • updated 25 days ago by Michael Love ♦ 18k
1
vote
1
answer
69
views
1
answer
Analysis guidance for data inclusion in deseq2 analysis: data subsets vs contrasts
rnaseq deseq2 written 4 weeks ago by chris • 0 • updated 25 days ago by Michael Love ♦ 18k
0
votes
0
answers
31
views
0
answers
0 values in cuff_data file from cummeRbund
rnaseq cummerbund cuff_data cuffset written 27 days ago by alexandra.holden.2015 • 0
5
votes
2
answers
151
views
2
answers
Why DESeq2 and edgeR give different results?
rnaseq edger deseq2 differential gene expression written 4 weeks ago by Biologist • 70 • updated 29 days ago by Gordon Smyth ♦ 33k
2
votes
2
answers
93
views
2
answers
Tximport of quasi-alignment-based RNAseq quantification (Salmon) for use with edgeR
rnaseq edger salmon tximport written 4 weeks ago by martin.weihrauch • 10 • updated 4 weeks ago by Aaron Lun • 19k
0
votes
1
answer
72
views
1
answer
Normalized Values of Multi Sample Count Matrix with DESeq2
rnaseq normalization deseq2 written 4 weeks ago by hkarakurt • 10 • updated 4 weeks ago by Michael Love ♦ 18k
0
votes
1
answer
67
views
1
answer
Warning message RSQLite::Id in CummeRbund
rnaseq cummerbund bioconductor written 5 weeks ago by alexandra.holden.2015 • 0 • updated 5 weeks ago by James W. MacDonald ♦ 46k
1
vote
4
answers
224
views
4
answers
Import bamfiles for RNAsequencing analysis
rnaseq R bam file written 7 weeks ago by Morris_Chair • 0 • updated 5 weeks ago by Gordon Smyth ♦ 33k
0
votes
0
answers
256
views
0
answers
RNA-seq with hisat2+stringtie+ballgown
rnaseq ballgown stringtie hisat2 written 4 months ago by mnandita • 0
0
votes
0
answers
82
views
0
answers
Ballgown data processing error
rnaseq deg ballgown stringtie written 6 weeks ago by vharshavardhanan • 0
2
votes
1
answer
99
views
1
answer
Principle component analysis plot with gene expression data
rnaseq edger R pca ggbiplot written 6 weeks ago by Biologist • 70 • updated 6 weeks ago by James W. MacDonald ♦ 46k
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