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Answer: Answer: Combining two bulk RNA seq datasets
6 months ago W. Evan Johnson ▴ 870
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Comment: Comment: A ComBat-seq issue: the covariates are confounded
8 months ago W. Evan Johnson ▴ 870
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Comment: Comment: combat output NaN
13 months ago W. Evan Johnson ▴ 870
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Comment: Comment: Problem in analysing microarray data with ComBat
21 months ago W. Evan Johnson ▴ 870
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Comment: C: DeSeq2 with three batches - Remove batch Effect
4.2 years ago W. Evan Johnson ▴ 870
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Answer: A: sva ComBat implementation for multiple sources of batch effects
4.6 years ago W. Evan Johnson ▴ 870
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Answer: A: sva ComBat implementation for multiple sources of batch effects
4.6 years ago W. Evan Johnson ▴ 870
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Answer: A: problem for interpretation of resulted ComBat() plot
5.0 years ago W. Evan Johnson ▴ 870
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3.9k
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Comment: C: ComBat normalization for batch effect change 0 values
5.6 years ago W. Evan Johnson ▴ 870
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1
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1.3k
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Rsubread for microbiome data analysis: genome >4GB
alignment rsubread microbiome
updated 6.1 years ago by ★ 3.6k • written 6.1 years ago by ▴ 870
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Answer: A: A problem in using Combat
6.5 years ago W. Evan Johnson ▴ 870
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Answer: A: Running ComBat Without a Batch Argument to Correct for Continuous, Numeric Covar
7.2 years ago W. Evan Johnson ▴ 870
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2.3k
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Comment: C: PCA of bladderdata ("Batch effects and confounders" tutorial)
8.4 years ago W. Evan Johnson ▴ 870
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4.5k
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Comment: C: Method for batch correction
8.7 years ago W. Evan Johnson ▴ 870
5
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3.4k
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Answer: A: SVA: Including variable of interest in ComBat model matrix
8.7 years ago W. Evan Johnson ▴ 870
3
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1
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4.5k
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Answer: A: Method for batch correction
8.7 years ago W. Evan Johnson ▴ 870
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2.1k
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Answer: A: Evaluation of diagnostic plot resulted from ComBat function regarding batch effe
8.9 years ago W. Evan Johnson ▴ 870
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6.8k
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Answer: A: ComBat with multiple batches
8.9 years ago W. Evan Johnson ▴ 870
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5.1k
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Answer: A: Running Combat in SVA with NA values in matrix
9.0 years ago W. Evan Johnson ▴ 870
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5.5k
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Answer: A: Combat generating negative values, should I log2 transform first?
9.2 years ago W. Evan Johnson ▴ 870
3
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1
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5.3k
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Answer: A: Using of limma moderated t-test with "corrected" expression matrix resulting fr
9.2 years ago W. Evan Johnson ▴ 870
2
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3
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9.2k
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Answer: A: batch effect : comBat or blocking in limma ?
9.2 years ago W. Evan Johnson ▴ 870
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1.6k
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Comment: C: Reproducibility of results with ComBat
9.3 years ago W. Evan Johnson ▴ 870
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3.2k
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Answer: A: Prior plots from COMBAT
9.3 years ago W. Evan Johnson ▴ 870
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6.9k
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Comment: C: ComBat: Error non-conformable arguments
updated 9.6 years ago by ★ 8.2k • written 9.6 years ago by ▴ 870
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4.9k
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Answer: A: sva::ComBat without covariate of interest?
10.1 years ago W. Evan Johnson ▴ 870
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3.8k
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Answer: A: ComBat: should the variable of interest be included into model matrix
10.1 years ago W. Evan Johnson ▴ 870
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1.7k
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Answer: A: barcode support for other platforms
10.3 years ago W. Evan Johnson ▴ 870
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3
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2.3k
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ComBat
Microarray rama Microarray rama
updated 10.5 years ago by ▴ 10 • written 10.5 years ago by ▴ 870
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3
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1.9k
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ComBat:RT-PCR Data
Microarray Microarray
updated 10.6 years ago by ▴ 20 • written 10.6 years ago by ▴ 870
0
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4
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1.8k
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combat error message
miRNA Normalization affy miRNA Normalization affy
updated 10.6 years ago by ★ 13k • written 10.6 years ago by ▴ 870
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1.8k
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Answer: A: ComBat - stuck please help!
10.6 years ago W. Evan Johnson ▴ 870
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2.0k
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Comment: C: Combat Continuous
10.6 years ago W. Evan Johnson ▴ 870
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2.2k
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ComBat: 2 adjustment variables & continuous adjustment variables
GO Category sva GO Category sva
10.8 years ago W. Evan Johnson ▴ 870
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1.1k
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Answer: A: Design matrix in Combat algorithm
10.9 years ago W. Evan Johnson ▴ 870
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0
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4.3k
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Answer: A: ComBat: Error when including numerical covariates in model (numCovs)
10.9 years ago W. Evan Johnson ▴ 870
0
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2
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4.3k
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ComBat: Error when including numerical covariates in model (numCovs)
sva sva
updated 10.9 years ago by ▴ 20 • written 10.9 years ago by ▴ 870
0
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1
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1.5k
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Questions on Combat in methylation data Thank you for your help
GO sva GO sva
updated 11.0 years ago by ▴ 440 • written 11.0 years ago by ▴ 870
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2
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5.1k
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Normalization before ComBat
Microarray Normalization probe affy frma Microarray Normalization probe affy frma
updated 11.2 years ago by ▴ 40 • written 11.2 years ago by ▴ 870
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2.2k
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sva/ComBat with missing values?
impute impute
11.2 years ago W. Evan Johnson ▴ 870
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1.6k
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Answer: A: Running ComBat in parallel
11.3 years ago W. Evan Johnson ▴ 870
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2
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1.6k
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Running ComBat in parallel
11.3 years ago W. Evan Johnson ▴ 870
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10k
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Answer: A: ComBat_ Error in solve.default(t(design) %*% design): Lapack routine dgesv: syst
11.3 years ago W. Evan Johnson ▴ 870
1
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7
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10k
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ComBat_ Error in solve.default(t(design) %*% design): Lapack routine dgesv: system is exactly singular: U[4, 4] = 0
11.3 years ago W. Evan Johnson ▴ 870
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10k
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Comment: C: ComBat_ Error in solve.default(t(design) %*% design): Lapack routine dgesv: syst
11.3 years ago W. Evan Johnson ▴ 870
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10k
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Comment: C: ComBat_ Error in solve.default(t(design) %*% design): Lapack routine dgesv: syst
11.3 years ago W. Evan Johnson ▴ 870
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2.2k
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Answer: A: ComBat: Could it utilize technical replicates?
11.4 years ago W. Evan Johnson ▴ 870
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0
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1.8k
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Answer: A: combining/merging several ExpressionSet objects from SCAN
11.4 years ago W. Evan Johnson ▴ 870
3
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1
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2.2k
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Answer: A: ComBat: Could it utilize technical replicates?
11.4 years ago W. Evan Johnson ▴ 870
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2
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1.6k
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use Combat to adjust for hidden variables without knowing batch effect
Clustering sva Clustering sva
11.4 years ago W. Evan Johnson ▴ 870
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