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Showing top results for tag: Combat • reset
0
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226
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How to handle Single-Level Batch Variable for Batch Correction in RNA-Seq Data
Combat RNA-seq batch-correction
updated 8 weeks ago by 44k • written 8 weeks ago by ▴ 20
0
votes
6
replies
495
views
Batch correction for RNA-seq using ComBat-seq for same group and batch
SVA ComBat_seq ComBat DESeq2 RNA-seq
11 weeks ago by botloggy ▴ 10
2
votes
3
replies
346
views
Is ComBat not able to to handle only two batches? What are good alternatives?
ComBat batch correction
3 months ago by samuelandjw ▴ 260
0
votes
1
reply
394
views
creating batch colum for batch correction
batch-correction combat
5 months ago by Expert ▴ 10
0
votes
0
replies
209
views
bulk RNA-seq: how to remove batch effect between multiple batches and labels?
combat batch
7 months ago by kiraqueen • 0
2
votes
2
replies
777
views
Forum: Do batches contain biological variations in omics data (RNAseq or scRNAseq)?
combat single-cell omics batch rnaseq
updated 10 months ago by 44k • written 10 months ago by ▴ 40
0
votes
0
replies
328
views
using technical replicates for batch bridging of illumina epic methylation data
combat methylation limma epic batch
updated 12 months ago by 44k • written 12 months ago by • 0
0
votes
2
replies
809
views
CombatSeq on a large dataset before running DSeq2 on a very small subset?
combat RNA-Seq batch-effect DEseq2 DGE
14 months ago by ecamenen • 0
3
votes
7
replies
1.4k
views
Normalization of Batch effect removal
ComBat
updated 15 months ago by 85k • written 15 months ago by ▴ 50
0
votes
0
replies
358
views
ComBat returns negative expression value
SVA batch ComBat R
16 months ago by Grace • 0
0
votes
1
reply
3.0k
views
Adjusting for batch effect and covariates with ComBat
batch-effect RNA-Seq combat
updated 17 months ago by 44k • written 4.0 years ago by ▴ 40
0
votes
0
replies
414
views
bulk RNAseq matrix design and donor effect correction
RNA-SEQ limma combat batch-effect DESeq2
updated 18 months ago by 44k • written 18 months ago by • 0
1
vote
2
replies
772
views
How to adjust for multiple batches using Combat-Seq
ComBat RNA-seq
updated 19 months ago by 44k • written 19 months ago by • 0
3
votes
9
replies
4.1k
views
Batch effect in integrated RNA-seq analysis
batch-effect RNA-seq Combat
updated 20 months ago by 4.3k • written 20 months ago by • 0
3
votes
6
replies
1.8k
views
SVA vs limma model
r combat sva microaray batch-effect
20 months ago by rk.khayami94 ▴ 10
96
votes
16
replies
25k
views
15 follow
Are we tricking ourselves with batch effect correction?
combat batch-effect sva
updated 21 months ago by ▴ 20 • written 9.4 years ago by ★ 3.1k
0
votes
0
replies
533
views
Evaluation method for meta-analysis using RNA-seq using Combat_seq
Meta-analysis Combat RNA-seq R
updated 22 months ago by 85k • written 22 months ago by ▴ 40
13
votes
15
replies
15k
views
7 follow
Error in while (change > conv) { : missing value where TRUE/FALSE needed
Combat Batch-effect RNA-Seq
updated 8 months ago by 44k • written 7.1 years ago by ★ 1.4k
2
votes
5
replies
1.8k
views
How to fix Error in dat[, batch == batch_level] : (subscript) logical subscript too long when removing batch effects
microarray combat batch-effect median-normalization
updated 4 months ago by • 0 • written 2.0 years ago by • 0
3
votes
6
replies
3.0k
views
How to adjust by multiple variables using ComBat-Seq?
CombatSeq combat rna-seq sva batch-effect
updated 6 months ago by 44k • written 2.3 years ago by ▴ 40
0
votes
0
replies
526
views
Is it necessary to standardize Combat in R?
Combat sva R scale RNA
2.5 years ago by tkmt ▴ 10
0
votes
4
replies
1.1k
views
DESeq after ComBat_seq
star combat sva
2.5 years ago by AStudent • 0
1
vote
0
replies
390
views
Should Combat be performed if I want to compare a signature score between TCGA RNA-seq and our own RNA-seq data?
combat Batch-Effect RNA-Seq
updated 10 weeks ago by 44k • written 2.6 years ago by ▴ 50
0
votes
0
replies
502
views
How Combat-Seq handles the biological covariables?
combat CombatSeq sva rnaseq
2.7 years ago by ev97 ▴ 40
0
votes
1
reply
664
views
RNA sequencing data and batch effect
combat Batch-Effect RNA-Seq
updated 10 weeks ago by 44k • written 2.8 years ago by ▴ 50
0
votes
1
reply
843
views
Combat for microbiome batch effects
phyloseq microbiome batch Combat
updated 2.8 years ago by • 0 • written 2.8 years ago by ▴ 10
0
votes
1
reply
843
views
Combining Microarray and RNA-Seq datasets visualization and comparison
ComBat microarray sva RNAseq expression gene
updated 2.9 years ago by 85k • written 2.9 years ago by ▴ 260
0
votes
4
replies
1.3k
views
Is it feasible to combine TCGA and GEO data by using ComBat?
ComBat
2.8 years ago by JB lee • 0
0
votes
0
replies
602
views
Working with different batches: when to apply normalization
combat microarray batch transformation normalization
3.1 years ago by mincej20 • 0
3
votes
2
replies
832
views
Batch Correction While Batch Numbers and Labels Match
batch label combat
updated 3.2 years ago by 85k • written 3.2 years ago by ▴ 10
1
vote
0
replies
601
views
Adjusting batch effects for this specific study design using ComBat
Batch-effect ComBat
updated 3.3 years ago by 44k • written 3.3 years ago by ▴ 10
9
votes
10
replies
5.8k
views
What exactly should and shouldn't go in Combat's model matrix?
batch effects expression gene combat
updated 3.4 years ago by ★ 3.0k • written 3.4 years ago by ▴ 370
1
vote
0
replies
584
views
ComBat before or after filtering
ComBat batchadjustment microarray
3.5 years ago by averagelife ▴ 10
0
votes
6
replies
1.6k
views
error in running Combat function
R sva Combat R studio
3.8 years ago by reza ▴ 300
7
votes
5
replies
2.4k
views
Batch-correction on tximport data from salmon
salmon sva combat RNA-Seq DESeq2
3.9 years ago by ic23oluk • 0
60
votes
22
replies
33k
views
7 follow
Batch correction in DESeq2
Combat DESeq2 Batch-Effect
updated 6 months ago by 44k • written 5.0 years ago by ▴ 530
8
votes
4
replies
5.4k
views
Normalization and batch effects correction in RNA-Seq data
RNA-Seq Combat
updated 4.2 years ago by 13k • written 4.2 years ago by ▴ 260
5
votes
2
replies
1.1k
views
How to perform batch correction when we have only single condition?
sva combat batch-effect DESeq2
updated 6 months ago by 44k • written 4.3 years ago by ▴ 680
22
votes
14
replies
30k
views
7 follow
removing batch effects using ComBat and SVA
SVA ComBat R Batch-effect
updated 6 months ago by 44k • written 8.4 years ago by ▴ 280
0
votes
3
replies
1.3k
views
Batch effect for SNP array
sva combat batch-effect SNP
updated 6 months ago by 44k • written 4.7 years ago by ▴ 10
0
votes
0
replies
1.3k
views
Extra adjustment variables during batch effect correction
rna-seq ComBat batch-effect
updated 6 months ago by 44k • written 4.8 years ago by ▴ 370
3
votes
7
replies
1.2k
views
Can I use batch effect correction "by parts"?
ComBat RNA-Seq batch-effect
updated 6 months ago by 44k • written 4.8 years ago by ▴ 370
7
votes
2
replies
2.0k
views
sva combat removes wanted biological variation
rna-seq r combat sva PCA
updated 5.0 years ago by 20 • written 5.8 years ago by ▴ 60
0
votes
1
reply
1.1k
views
In SVA, the percent of biological variable of interest didnot change after adding SV1.
sva R combat
updated 5.0 years ago by 88k • written 5.0 years ago by • 0
3
votes
2
replies
1.1k
views
Can I take 'organ type' as a batch effect and use ComBat to remove organ dependent variations?
RNA-Seq Cross-Species SVA ComBat Batch-Effect
updated 6 months ago by 44k • written 5.2 years ago by • 0
3
votes
2
replies
2.4k
views
analysis of multiple batches and multiple treatment conditions in scRNA-seq
scRNA-seq limma edgeR DEseq2 combat
updated 5.2 years ago by ▴ 30 • written 5.3 years ago by ★ 1.4k
0
votes
2
replies
3.2k
views
Should I pre-normalize RNAseq data before combat?
RNA-Seq combat batch-effect R
updated 6 months ago by 44k • written 5.3 years ago by ▴ 50
2
votes
2
replies
1.9k
views
Remove batch effect for many RNA-seq
ComBat RNA-Seq batch-effect sva
updated 6 months ago by 44k • written 5.3 years ago by • 0
6
votes
7
replies
1.9k
views
How to assess RNA-Seq batch correction success?
Combat RNA-Seq Limma DESeq2 batch-effect
updated 6 months ago by 44k • written 5.5 years ago by ▴ 140
0
votes
2
replies
4.9k
views
svaseq and combat
sva combat batch-effect
updated 10 weeks ago by 44k • written 7.5 years ago by ▴ 190
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