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<prev • 55 results • page 1 of 2 • next >
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Batch effect for SNP array
sva combat snp batch effect written 21 days ago by Taylor95 • 10 • updated 20 days ago by Biostar ♦♦ 20
6
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2
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3.7k
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sva + egdeR - differential expression analysis - RNA-seq data
sva rna-seq edger written 4.2 years ago by mrodrigues.fernanda • 40 • updated 10 weeks ago by Biostar ♦♦ 20
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1
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515
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1
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sva combat removes wanted biological variation
R sva combat rna-seq pca written 13 months ago by exin • 50 • updated 3 months ago by Biostar ♦♦ 20
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In SVA, the percent of biological variable of interest didnot change after adding SV1.
R sva combat written 4 months ago by dhwani2410 • 0 • updated 4 months ago by Kevin Blighe ♦ 55k
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Can I take 'organ type' as a batch effect and use ComBat to remove organ dependent variations?
sva batch effects combat rna-seq cross-species written 5 months ago by rodguinea • 0 • updated 5 months ago by i.sudbery ♦ 7.0k
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Remove batch effect for many RNA-seq
sva combat rna-seq batch effect written 7 months ago by Shaway • 0
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225
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Strong covariates and weak biological signal in transcriptomes
R sva written 8 months ago by Agustin Gonzalez-Vicente • 50 • updated 8 months ago by zx8754 ♦ 9.0k
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383
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pData function not found. substitute? "An end to end workflow for differential gene expression using Affymetrix microarrays"
R bioconductor pvca sva pdata written 9 months ago by RNAseqer • 130 • updated 9 months ago by zx8754 ♦ 9.0k
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444
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Principal component analysis of SVA's surrogate variables
sva stdev surrogate variables written 9 months ago by RNAseqer • 130 • updated 9 months ago by geek_y ♦ 10k
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contrast matrix design question, limma-sva
sva contrast matrix limma written 9 months ago by RNAseqer • 130
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227
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sva pprob.b all 0s?
R sva pprob.b microarray written 9 months ago by RNAseqer • 130
3
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633
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Using SVA to correct for covariates in RNA-seq data
R sva corrections covariates rna-seq written 11 months ago by sbrown669 • 20
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Question about sva + edgeR to identify differentially expressed genes
sva edger written 11 months ago by tujuchuanli • 60 • updated 11 months ago by ATpoint ♦ 30k
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svaseq and combat
combat sva effect batch written 2.8 years ago by Folder40g • 120 • updated 11 months ago by liull_hust • 0
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removing batch effects using ComBat and SVA
R sva combat batch effect written 3.7 years ago by LJ • 210 • updated 12 months ago by Agustin Gonzalez-Vicente • 50
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268
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sva correction for MEDIPS
medip-seq sva svaseq medips written 13 months ago by tofukaj • 0
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ComBat correction with one batch containing only one sample - keep or remove?
proteome sva combat R written 15 months ago by hesse.sebastian • 80 • updated 13 months ago by Biostar ♦♦ 20
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Normalise batch effects for Percent Spliced In (PSI) matrice
sva combat splicing written 13 months ago by ZheFrench • 270
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5 follow
1
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sva output interpretation
sva rna-seq written 17 months ago by elb • 170 • updated 17 months ago by Devon Ryan ♦ 94k
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Design in DESeq: Can you combine explicit and implicit batch effect correction in (SVA+Metadata Variables)?
R sva deseq2 batch effects written 18 months ago by Kristin Muench • 480 • updated 18 months ago by Teresa • 20
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Help with multiple batch effects
sva batch effects combat written 20 months ago by fp89 • 20 • updated 20 months ago by genomax ♦ 78k
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how to combine sva with survival analysis to validate genes in an independent dataset?
coxph sva coxnet survival rna-seq written 20 months ago by a.e.c • 30
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Batch effect correction
sva combat matlab written 21 months ago by gstavropoulos1991 • 10
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SVA Input: Should SVs be calculated on normalized data?
R sva rna-seq written 21 months ago by Kristin Muench • 480
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5 follow
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Surrogate variable analysis: ask for a practical example
sva rna-seq written 22 months ago by Mozart • 140 • updated 22 months ago by RamRS ♦ 25k
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RNAseq sva-seq drops number of DE genes?
R sva svaseq rna-seq written 22 months ago by brismiller • 20 • updated 22 months ago by Kevin Blighe ♦ 55k
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Can't make sva comparison despite very distinct batch effects
sva factors batch effect written 2.0 years ago by jjrin • 10
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Plotting a PCA Plot from SVASeq results
pca plot sva batch effects svaseq ruvseq written 2.1 years ago by jjrin • 10
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14 follow
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Batch effects : ComBat or removebatcheffects (limma package) ?
sva batch effects combat limma written 2.6 years ago by lessismore • 750 • updated 2.3 years ago by Kevin Blighe ♦ 55k
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6 follow
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RNA-Seq Batch correction negative values
batch-effect combat scran rna-seq sva written 2.4 years ago by rmf • 900 • updated 2.4 years ago by Kevin Blighe ♦ 55k
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