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<prev • 44 results • page 1 of 2 • next >
9
votes
2
answers
9.6k
views
2
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removing batch effects using ComBat and SVA
R sva combat batch effect written 2.7 years ago by LJ • 170 • updated 12 days ago by Agustin Gonzalez-Vicente • 0
3
votes
0
answers
105
views
0
answers
sva combat removes wanted biological variation
R sva combat rna-seq pca written 21 days ago by exin • 50 • updated 21 days ago by zx8754 ♦ 6.5k
0
votes
0
answers
71
views
0
answers
sva correction for MEDIPS
medip-seq sva svaseq medips written 27 days ago by tofukaj • 0
0
votes
0
answers
150
views
0
answers
ComBat correction with one batch containing only one sample - keep or remove?
proteome sva combat R written 3 months ago by hesse.sebastian • 20 • updated 4 weeks ago by Biostar ♦♦ 20
1
vote
0
answers
98
views
0
answers
Normalise batch effects for Percent Spliced In (PSI) matrice
sva combat splicing written 4 weeks ago by ZheFrench • 190
3
votes
1
answer
179
views
5 follow
1
answer
sva output interpretation
sva rna-seq written 4 months ago by elb • 160 • updated 4 months ago by Devon Ryan ♦ 88k
6
votes
1
answer
669
views
1
answer
Design in DESeq: Can you combine explicit and implicit batch effect correction in (SVA+Metadata Variables)?
R sva deseq2 batch effects written 6 months ago by Kristin Muench • 350 • updated 5 months ago by Teresa • 20
1
vote
1
answer
576
views
1
answer
Help with multiple batch effects
sva batch effects combat written 7 months ago by fp89 • 0 • updated 7 months ago by genomax ♦ 62k
0
votes
0
answers
175
views
0
answers
how to combine sva with survival analysis to validate genes in an independent dataset?
coxph sva coxnet survival rna-seq written 7 months ago by a.e.c • 30
0
votes
1
answer
294
views
1
answer
Batch effect correction
sva combat matlab written 8 months ago by gstavropoulos1991 • 0
0
votes
0
answers
394
views
0
answers
SVA Input: Should SVs be calculated on normalized data?
R sva rna-seq written 9 months ago by Kristin Muench • 350
6
votes
1
answer
575
views
5 follow
1
answer
Surrogate variable analysis: ask for a practical example
sva rna-seq written 10 months ago by Mozart • 80 • updated 10 months ago by RamRS ♦ 20k
2
votes
1
answer
530
views
1
answer
RNAseq sva-seq drops number of DE genes?
R sva svaseq rna-seq written 10 months ago by brismiller • 10 • updated 10 months ago by Kevin Blighe ♦ 37k
0
votes
0
answers
680
views
0
answers
Can't make sva comparison despite very distinct batch effects
sva factors batch effect written 12 months ago by jjrin • 10
1
vote
0
answers
652
views
0
answers
Plotting a PCA Plot from SVASeq results
pca plot sva batch effects svaseq ruvseq written 12 months ago by jjrin • 10
9
votes
1
answer
4.3k
views
6 follow
1
answer
Batch effects : ComBat or removebatcheffects (limma package) ?
sva batch effects combat limma written 18 months ago by lessismore • 570 • updated 16 months ago by Kevin Blighe ♦ 37k
7
votes
1
answer
1.4k
views
6 follow
1
answer
RNA-Seq Batch correction negative values
batch-effect combat scran rna-seq sva written 17 months ago by rmf • 540 • updated 17 months ago by Kevin Blighe ♦ 37k
6
votes
0
answers
2.0k
views
5 follow
0
answers
SVA : Setting up the data from an ExpressionSet and applying sva function to extimate batches
sva batch effects combat written 19 months ago by lessismore • 570 • updated 17 months ago by Biostar ♦♦ 20
0
votes
1
answer
978
views
1
answer
SVA analysis output R
R sva rna-seq written 17 months ago by robertt_bw • 0 • updated 17 months ago by lessismore • 570
1
vote
2
answers
798
views
2
answers
Taking surrogate variable into account before running PCA
sva svaseq batch effect written 20 months ago by wamiqsaifi • 0 • updated 19 months ago by ivivek_ngs • 4.6k
0
votes
0
answers
1.3k
views
0
answers
svaseq and combat
combat sva effect batch written 21 months ago by Folder40g • 110 • updated 19 months ago by Biostar ♦♦ 20
1
vote
0
answers
605
views
0
answers
sea corrected expression matrix
sva batch effects microarrays written 19 months ago by DataFanatic • 120
8
votes
3
answers
3.9k
views
3
answers
What is an optimal normalization approach for comparing GTEx RNASeq normal vs TCGA tumor samples?
normalization sva deseq2 rna-seq written 3.4 years ago by Samir • 140 • updated 19 months ago by mforde84 • 1.2k
0
votes
1
answer
1.0k
views
1
answer
R: Error when using ComBat
R sva combat written 2.5 years ago by kkj3083 • 0 • updated 22 months ago by susanna.downing • 0
1
vote
0
answers
719
views
0
answers
Using SVA with RRBS data
rrbs; sva batcheffects written 23 months ago by mrodrigues.fernanda • 30
0
votes
0
answers
1.4k
views
0
answers
SVA + DESEQ2 : Looking for batcheffect in RNA-SEQ
sva deseq2 rna-seq batch written 2.2 years ago by ZheFrench • 190
0
votes
1
answer
945
views
1
answer
Batch correction (mass spectrometry data)
biostatistics R sva combat batch correction written 2.2 years ago by mkhadka10 • 0
2
votes
1
answer
799
views
1
answer
JunctionSeq: using continuous covariates, is it possible?
junctionseq R sva written 2.3 years ago by dhibar • 40 • updated 2.3 years ago by Charles Warden ♦ 6.1k
15
votes
3
answers
4.4k
views
3
answers
Remove Surrogate Variables and Batch
R sva combat written 4.2 years ago by tucanj • 70 • updated 2.4 years ago by ddiez • 1.7k
1
vote
0
answers
2.4k
views
0
answers
ComBat (SVA) Application - Two Technical Effects
bioconductor combat sva written 4.1 years ago by andrew.j.skelton73 ♦ 5.5k • updated 2.4 years ago by Biostar ♦♦ 20
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