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5
votes
1
answer
1.7k
views
1
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Using ComBat on RNASeq FPKM counts
combat rna-seq written 22 months ago by ebrudermanver • 40 • updated 9 days ago by Kevin Blighe ♦ 26k
1
vote
1
answer
202
views
1
answer
Help with multiple batch effects
sva batch effects combat written 7 weeks ago by fp89 • 0 • updated 7 weeks ago by genomax ♦ 54k
0
votes
1
answer
105
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1
answer
Batch effect correction
sva combat matlab written 12 weeks ago by gstavropoulos1991 • 0
0
votes
1
answer
167
views
1
answer
Removing batch effects between Affymetrix and Agilent platforms using ComBat
agilent combat microarray affymetrix written 3 months ago by nazaninhoseinkhan • 260 • updated 3 months ago by andrew.j.skelton73 ♦ 5.2k
7
votes
1
answer
1.5k
views
1
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Batch effects : ComBat or removebatcheffects (limma package) ?
sva batch effects combat limma written 12 months ago by lessismore • 490 • updated 9 months ago by Kevin Blighe ♦ 26k
2
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0
answers
2.0k
views
0
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Error in while (change > conv) { : missing value where TRUE/FALSE needed
combat rna-seq batch effect written 10 months ago by lessismore • 490 • updated 10 months ago by Biostar ♦♦ 20
5
votes
1
answer
849
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1
answer
RNA-Seq Batch correction negative values
batch-effect combat scran rna-seq sva written 10 months ago by rmf • 320 • updated 10 months ago by Kevin Blighe ♦ 26k
5
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0
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1.3k
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0
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SVA : Setting up the data from an ExpressionSet and applying sva function to extimate batches
sva batch effects combat written 13 months ago by lessismore • 490 • updated 11 months ago by Biostar ♦♦ 20
1
vote
1
answer
443
views
1
answer
Time point microarray data correcting for batch effects
combat microarray batch effect written 12 months ago by tleona3 • 10 • updated 12 months ago by mforde84 • 1.2k
0
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0
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1.0k
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0
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svaseq and combat
combat sva effect batch written 15 months ago by Folder40g • 110 • updated 13 months ago by Biostar ♦♦ 20
7
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2
answers
7.7k
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2
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removing batch effects using ComBat and SVA
R sva combat batch effect written 2.2 years ago by LJ • 150 • updated 13 months ago by lessismore • 490
3
votes
1
answer
626
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1
answer
Converting beta value to M value (when beta=1)
dna methylation combat written 13 months ago by janhuang.cn • 90 • updated 13 months ago by Devon Ryan ♦ 82k
0
votes
1
answer
642
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1
answer
ComBat on TCGA RNAseq data generates all NAN
tcga combat written 14 months ago by mforde84 • 1.2k
0
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0
answers
410
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0
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meta-analysis: can I still combine the 2 studies?
microbiome 16s combat meta-analysis otu written 14 months ago by alowi33 • 0
3
votes
0
answers
756
views
0
answers
any recommended tools for batch effect and normalization not written in R?
python batch effect combat rna-seq R written 17 months ago by dyollluap • 300 • updated 15 months ago by Biostar ♦♦ 20
0
votes
1
answer
809
views
1
answer
R: Error when using ComBat
R sva combat written 23 months ago by kkj3083 • 0 • updated 16 months ago by susanna.downing • 0
0
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0
answers
384
views
0
answers
Scan Dates will not show
bioconductor affy combat written 17 months ago by jmannhei • 0
0
votes
0
answers
561
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0
answers
Correcting batch effect from known variables in RnBeads using Combat
450k combat methylation rnbeads batch effect written 17 months ago by rahel14350 • 20
0
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0
answers
1.0k
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0
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Differential expression on Combat-adjusted FPKM
fpkm combat rna-seq differential expression written 21 months ago by mare116 • 0
0
votes
1
answer
695
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1
answer
Batch correction (mass spectrometry data)
biostatistics R sva combat batch correction written 21 months ago by mkhadka10 • 0
15
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3
answers
3.8k
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3
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Remove Surrogate Variables and Batch
R sva combat written 3.7 years ago by tucanj • 70 • updated 22 months ago by ddiez • 1.7k
1
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0
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2.0k
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0
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ComBat (SVA) Application - Two Technical Effects
bioconductor combat sva written 3.6 years ago by andrew.j.skelton73 ♦ 5.2k • updated 23 months ago by Biostar ♦♦ 20
16
votes
2
answers
13k
views
2
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Remove Batch Effect From RNAseq with SVAseq and Combat
combat svaseq model.matrix rna-seq batch effect written 3.4 years ago by cankutcubuk • 170 • updated 2.0 years ago by amoltej • 80
1
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1
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1.2k
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1
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what is the meaning of covariates in ComBat
R combat written 2.2 years ago by LJ • 150
54
votes
3
answers
9.2k
views
15 follow
3
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Are we tricking ourselves with batch effect correction?
sva combat batch effect written 3.2 years ago by Christian • 2.6k • updated 2.2 years ago by vegard nygaard • 120
6
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3
answers
2.4k
views
3
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Combat normalization returns negative values
batch correction sva combat rna-seq R written 2.6 years ago by lahat.albert • 50 • updated 2.6 years ago by mamunbabu2001 • 40
8
votes
3
answers
3.9k
views
6 follow
3
answers
Normalizing For Batch Effect In RNA-Seq Data
batch-effect principle-component combat rna-seq written 4.3 years ago by Tom A • 80 • updated 2.7 years ago by tonja.r • 430
5
votes
1
answer
6.1k
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1
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How to remove batch effect from RNA-seq data?
sva deseq2 combat rna-seq batch written 3.1 years ago by alesssia • 480 • updated 3.1 years ago by Michael Love • 1.6k
2
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1
answer
3.2k
views
1
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Batch Effect normalization with Combat generates error
normalization combat microarray written 3.3 years ago by madkitty • 570
1
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1
answer
6.8k
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1
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How to use Combat in R??
software error R combat written 3.3 years ago by madkitty • 570
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