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<prev • 71 results • page 1 of 3 • next >
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Surrogate variable, celltype composition correction and overfitting in DNA methylation data
array sva methylation limma written 4 days ago by Papyrus • 620
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79
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error in running Combat function
r studio R sva combat written 11 days ago by reza • 240
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167
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Batch-correction on tximport data from salmon
salmon sva deseq2 combat rna-seq written 7 weeks ago by mfrech6 • 0
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251
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ComBat-seq adjustment of batch effects
sva batch effects rna-seq combat-seq edger written 9 weeks ago by chatterjee.arumoy • 20
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312
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Should the number of significantly DE genes rise with the number of SVs estimated (SVA package)?
sva written 11 weeks ago by Sam • 120
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Batch effect removal with the help of sva
sva gene expression batch effect written 12 weeks ago by banerjeeshayantan • 190 • updated 12 weeks ago by Papyrus • 620
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How to avoid overfitting using SVA?
sva rna-seq overfitting written 4 months ago by Sam • 120
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252
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Surrogate variables in eQTL studies
sva deseq2 covariates eqtl gtex written 4 months ago by rodd • 130
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DESeq2: vst() and varianceStabilizingTransformation()
R sva rna-seq normalization written 4 months ago by lenC_biotecLover • 20 • updated 4 months ago by Kevin Blighe ♦ 69k
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How to perform batch correction when we have only single condition?
batcheffects sva deseq2 combat written 6 months ago by svp • 420
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Surrogate variable analysis: do I need to adjust all SVs?
sva methylation surrogate variable analysis written 8 months ago by wwyue127 • 10
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removing batch effects using ComBat and SVA
R sva combat batch effect written 4.6 years ago by LJ • 250 • updated 6 months ago by zhao03 • 30
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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 6 months ago by amirmehrgou • 0 • updated 6 months ago by _r_am ♦ 32k
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Plotting PCA plot in DESeq2 on SVA corrected counts
sva deseq2 pca written 7 months ago by Mozart • 240
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Comparison between heat maps corrected with different algorithms
sva written 7 months ago by Mozart • 240 • updated 7 months ago by Kevin Blighe ♦ 69k
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Removing Unknown Batch Effects and Latent Confounders in Splicing PSI Data
sva differential expression splicing rna-seq limma written 8 months ago by eggerj • 10 • updated 8 months 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 9 months ago by ncxhit • 0
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Batch effect for SNP array
sva combat snp batch effect written 11 months ago by Taylor95 • 10 • updated 10 months ago by Biostar ♦♦ 20
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sva + egdeR - differential expression analysis - RNA-seq data
sva rna-seq edger written 5.1 years ago by mrodrigues.fernanda • 50 • updated 13 months ago by Biostar ♦♦ 20
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sva combat removes wanted biological variation
R sva combat rna-seq pca written 24 months ago by exin • 50 • updated 14 months ago by Biostar ♦♦ 20
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267
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In SVA, the percent of biological variable of interest didnot change after adding SV1.
R sva combat written 15 months ago by dhwani2410 • 0 • updated 14 months ago by Kevin Blighe ♦ 69k
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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 16 months ago by rodguinea • 0 • updated 16 months ago by i.sudbery ♦ 10k
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Remove batch effect for many RNA-seq
sva combat rna-seq batch effect written 18 months ago by Shaway • 0
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330
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Strong covariates and weak biological signal in transcriptomes
R sva written 19 months ago by Agustin Gonzalez-Vicente • 70 • updated 19 months ago by zx8754 ♦ 9.9k
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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 20 months ago by RNAseqer • 140 • updated 20 months ago by zx8754 ♦ 9.9k
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Principal component analysis of SVA's surrogate variables
sva stdev surrogate variables written 20 months ago by RNAseqer • 140 • updated 20 months ago by geek_y ♦ 11k
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contrast matrix design question, limma-sva
sva contrast matrix limma written 20 months ago by RNAseqer • 140
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sva pprob.b all 0s?
R sva pprob.b microarray written 20 months ago by RNAseqer • 140
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Using SVA to correct for covariates in RNA-seq data
R sva corrections covariates rna-seq written 22 months ago by sbrown669 • 20
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Question about sva + edgeR to identify differentially expressed genes
sva edger written 22 months ago by tujuchuanli • 90 • updated 22 months ago by ATpoint ♦ 44k
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