Showing : Combat SVA • reset
3
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6
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is it necessary to check batch effect in this case? and how to?
svaseq combat sva RANseq batcheffect removebatcheffect
updated 7.5 years ago by ▴ 50 • written 7.5 years ago by ▴ 10
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2
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1.5k
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is it possible to before and after batch effect removal from the data and see that batch effect removal actually worked
combat sva batch effect comba
updated 7.5 years ago by ▴ 110 • written 7.5 years ago by ▴ 10
0
votes
1
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3.4k
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SVA behaving weirdly, system is computationally singular , problem with method leek only
SVA combat sva leek
updated 2.9 years ago by • 0 • written 7.0 years ago by ▴ 10
1
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1
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1.6k
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Inspection of batch effect correction success with ComBat in R, regarding a merged dataset comprised of 4 different batches
affymetrix microarrays sva combat sva batch effect plotMDS
updated 7.7 years ago by ▴ 650 • written 7.7 years ago by ▴ 830
7
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3
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3.1k
views
SVA: Including variable of interest in ComBat model matrix
combat sva SVA sva ComBat batch effect
updated 8.0 years ago by ▴ 850 • written 8.0 years ago by ▴ 20
1
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2
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2.4k
views
cross platform normalization in R
R Combat SVA
updated 8.3 years ago by ★ 13k • written 8.3 years ago by • 0
0
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1
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1.2k
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Combat prior plots good enough?
combat combat sva
6.6 years ago Miss Agnieszka Aleksandra Golicz ▴ 40
1
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2
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1.2k
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Batch effect problem using SVA showing problems
SVA combat sva batch effect
updated 7.7 years ago by ▴ 650 • written 7.7 years ago by ▴ 10
0
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0
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1.2k
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removing batch effects using sva combat and linear regression
combat sva microarry Jeff leek
6.8 years ago DataFanatic ▴ 10
0
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0
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629
views
Number of SVA increased after ComBat
combat sva
6.1 years ago • updated 6.0 years ago jonellevillar • 0
0
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0
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818
views
Help with multiple batch effects
combat sva batch effect
5.8 years ago Fp • 0
0
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0
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924
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ComBat covariate bias when building centroid based predictors
combat combat sva pamr limma design matrix sva
5.6 years ago jmsendoya • 0
0
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0
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1.1k
views
SVA: Using ComBat for synthetic genetic array data
combat sva sga combat batch effect
8.0 years ago John Townsend ▴ 20
0
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4
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1.8k
views
ComBat: Adjustment for 3experimental variables
ENmix combat.mc illumina450k combat sva
7.8 years ago DSP • 0
0
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0
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921
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SVA) Error while using 'sva' package - combat
combat sva
7.7 years ago kkwon • 0
0
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2
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949
views
Problem with Combat batch adjustment
combat sva
7.4 years ago vinnu260 ▴ 10
0
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0
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1.2k
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RPKM counts with SVA package & Combat with SVA?
batch effect combat sva sva
7.1 years ago Ahdee ▴ 50
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0
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1.2k
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What is the input for Combat in R?
combat sva input files
7.1 years ago arisarkar88 ▴ 40
0
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0
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886
views
SVA: Reference manual improvment
combat sva sva
7.0 years ago alice.anlind • 0
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Comment: Why p value inconsistent when using different number of pathway score? by Chris • 0
Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
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Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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