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<prev • 61 results • page 1 of 3 • next >
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How can Differentially Expressed Genes be found by limma package after removing batch effect by ComBat function in sva package?
R sva limma batch effect written 4 days ago by amirmehrgou • 0 • updated 4 days ago by RamRS ♦ 27k
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Plotting PCA plot in DESeq2 on SVA corrected counts
sva deseq2 pca written 4 weeks ago by Mozart • 190
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115
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Comparison between heat maps corrected with different algorithms
sva written 22 days ago by Mozart • 190 • updated 21 days ago by Kevin Blighe ♦ 61k
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Surrogate variable analysis: do I need to adjust all SVs?
sva methylation surrogate variable analysis written 5 weeks ago by wwyue127 • 10
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Removing Unknown Batch Effects and Latent Confounders in Splicing PSI Data
sva differential expression splicing rna-seq limma written 6 weeks ago by eggerj • 0 • updated 6 weeks ago by geek_y ♦ 11k
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Question: Where can I download ALU, SVA and LINE1 Elements in fasta format?
sva alu line1 1000 genome project written 12 weeks ago by ncxhit • 0
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Batch effect for SNP array
sva combat snp batch effect written 5 months ago by Taylor95 • 10 • updated 3 months ago by Biostar ♦♦ 20
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sva + egdeR - differential expression analysis - RNA-seq data
sva rna-seq edger written 4.5 years ago by mrodrigues.fernanda • 40 • updated 6 months ago by Biostar ♦♦ 20
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sva combat removes wanted biological variation
R sva combat rna-seq pca written 17 months ago by exin • 50 • updated 7 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 8 months ago by dhwani2410 • 0 • updated 8 months ago by Kevin Blighe ♦ 61k
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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 10 months ago by rodguinea • 0 • updated 10 months ago by i.sudbery ♦ 8.1k
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Remove batch effect for many RNA-seq
sva combat rna-seq batch effect written 11 months ago by Shaway • 0
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Strong covariates and weak biological signal in transcriptomes
R sva written 13 months ago by Agustin Gonzalez-Vicente • 70 • updated 13 months ago by zx8754 ♦ 9.3k
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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 13 months ago by RNAseqer • 130 • updated 13 months ago by zx8754 ♦ 9.3k
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Principal component analysis of SVA's surrogate variables
sva stdev surrogate variables written 14 months ago by RNAseqer • 130 • updated 14 months ago by geek_y ♦ 11k
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523
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contrast matrix design question, limma-sva
sva contrast matrix limma written 14 months ago by RNAseqer • 130
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sva pprob.b all 0s?
R sva pprob.b microarray written 14 months ago by RNAseqer • 130
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Using SVA to correct for covariates in RNA-seq data
R sva corrections covariates rna-seq written 15 months ago by sbrown669 • 20
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Question about sva + edgeR to identify differentially expressed genes
sva edger written 15 months ago by tujuchuanli • 60 • updated 15 months ago by ATpoint ♦ 36k
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svaseq and combat
combat sva effect batch written 3.1 years ago by Folder40g • 130 • updated 15 months ago by liull_hust • 0
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removing batch effects using ComBat and SVA
R sva combat batch effect written 4.1 years ago by LJ • 210 • updated 17 months ago by Agustin Gonzalez-Vicente • 70
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319
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sva correction for MEDIPS
medip-seq sva svaseq medips written 17 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 20 months ago by Sebastian Hesse • 110 • updated 17 months ago by Biostar ♦♦ 20
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Normalise batch effects for Percent Spliced In (PSI) matrice
sva combat splicing written 17 months ago by ZheFrench • 300
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5 follow
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sva output interpretation
sva rna-seq written 21 months ago by elb • 170 • updated 21 months ago by Devon Ryan ♦ 95k
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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 22 months ago by Kristin Muench • 500 • updated 22 months ago by Teresa • 20
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Help with multiple batch effects
sva batch effects combat written 2.0 years ago by fp89 • 20 • updated 2.0 years ago by genomax ♦ 85k
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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 2.0 years ago by a.e.c • 30
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Batch effect correction
sva combat matlab written 2.1 years ago by gstavropoulos1991 • 10
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SVA Input: Should SVs be calculated on normalized data?
R sva rna-seq written 2.1 years ago by Kristin Muench • 500
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