Showing : rlog transformation • reset
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deseq2: use blind=T or blind=F when find gene groups?
rlog transformation deseq2
updated 5.9 years ago by 42k • written 5.9 years ago by ▴ 20
6
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6
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8.4k
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DEseq2: Is vst/rlog transformation applied to raw counts or normalised counts?
deseq2 vst rlog transformation
updated 5.9 years ago by ★ 13k • written 5.9 years ago by ▴ 20
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3
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3.5k
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Data normalization and transformation using DESeq2
deseq2 normalization rnaseq rlog transformation variancestabilizingtransformation
6.0 years ago chiara.facciotto • 0
2
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3
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1.5k
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Better to use rlog or vst transformation for data quality assessment of differental expression data based on size factors?
DESeq2 quality assesment vst rlog transformation
updated 6.4 years ago by 42k • written 6.4 years ago by ▴ 10
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15
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3.1k
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rlog not found
rlog rlog transformation
6.5 years ago crowsreign42 • 0
1
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2
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2.0k
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DESEq2 Principal Component Analysis with different genes biotypes (protein coding, miRNAs, lncRNAs, etc)
DESeq2 PCA rlog transformation biotype
6.6 years ago JoannaF ▴ 10
1
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1
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1.9k
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sample removal after clustering
deseq2 rlog transformation
updated 6.8 years ago by 42k • written 6.8 years ago by • 0
2
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2
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4.9k
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choosing the normalization method (rlog, variance stabilizing transformation)
variancestabilizingtransformation rlog transformation deseq2
updated 12 months ago by • 0 • written 6.9 years ago by ▴ 80
4
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7
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4.7k
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DESeq2 for survival analysis
deseq2 survival rlog transformation
7.0 years ago array chip ▴ 420
2
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4
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3.4k
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DESeq2 - PCAplot differs between rlog and vsd transformation
DESeq2 plotPCA rlog transformation vsd
7.3 years ago Jane Merlevede ▴ 90
0
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2
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5.3k
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DESeq2: how to interpret the heatmap clustering samples
deseq2 rlog transformation heatmap scale
7.6 years ago lina.faller ▴ 10
1
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1
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765
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deseq2 rlog trasformation
deseq2 rlog transformation
updated 8.0 years ago by 42k • written 8.0 years ago by ▴ 40
2
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2
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1.3k
views
rlog transformation for Time-course data
deseq2 rlog transformation timecourse rnaseq
updated 8.1 years ago by 42k • written 8.1 years ago by • 0
0
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3
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1.7k
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rlog transformation using DESeq2
rlog transformation deseq2
updated 8.1 years ago by 42k • written 8.1 years ago by ▴ 60
6
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4
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4.1k
views
regularized log transformation- loss of zero values for sparsely expressed genes
deseq2 rlog transformation vst variancestabilizingtransformation rlog
updated 8.3 years ago by 42k • written 8.3 years ago by • 0
0
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3
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1.4k
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Variance estimation with DESeq2 and rLog transformation.
deseq2 rlog transformation
updated 8.3 years ago by ★ 13k • written 8.3 years ago by • 0
0
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4
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1.4k
views
rlog fast=TRUE not correct?
deseq2 rlog transformation vst
8.4 years ago ldetorrente ▴ 10
2
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2
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3.5k
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DESeq2 transformation to use for PCA plot
deseq2 pca rlog transformation variancestabilizingtransformation
8.5 years ago Shobana Sekar ▴ 20
0
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3
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7.6k
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What does DESeq2 rlog() return exactly?
deseq2 rlog rlog transformation
8.7 years ago lanhuong ▴ 20
0
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12
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12k
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Deseq2 rlog or 'regular' normalization?
Deseq2 rlog transformation data visualization
9.1 years ago sunil.mangalam • 0
20 results • Page 1 of 1
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Comment: Appropriate ways to filter counts data for voom/limma by dorothylminter • 0
The proper way to filter count data for voom/limma emphasizes the importance of choosing the right filtering technique to enhance detection…
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by Robert Castelo ★ 3.4k
Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…
Comment: DESeq2 rerun returns different results by ATpoint ★ 4.5k
DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…
Answer: [How to construct a model.matrix ] by Gordon Smyth 51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0
Hi Robert, Thank you for the explanation, But I am still little bit confused, Is the annotation package (TxDb.Hsapiens.UCSC.hg38.knownGene)…
Votes
A: Some questions for remove batch effect by using mnnCorrect
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
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