Showing : removebatcheffect • reset
4
votes
7
replies
3.5k
views
Check removeBatchEffect effectiveness
RNAseq limma removeBatchEffect
9 months ago • updated 4 months ago massimo ▴ 10
2
votes
2
replies
850
views
Batch adjustment for cohort based RNA seq data
RNASeqPower removeBatchEffect cpm Batcheffect
16 months ago sukeshinik5 ▴ 20
17
votes
9
replies
8.6k
views
How to use removeBatchEffect for removing effect of multiple confounding variables
limma removebatcheffect deseq2
updated 16 months ago by 68k • written 9.7 years ago by ▴ 10
4
votes
4
replies
1.9k
views
Using both voom and removeBatchEffect, will they double adjust the data or is it the right way to perform this
limma adjustment voom removeBatchEffect covariates
19 months ago sukeshinik5 ▴ 20
0
votes
2
replies
1.9k
views
Remove batch effect between microarray data
Microarray DifferentialExpression limma MicroarrayData removebatcheffect
3.1 years ago dqt • 0
0
votes
5
replies
6.4k
views
How to remove batch effect from RNA-seq without count data?
RUVSeq FPKM removeBatchEffect RNA-seq sva
updated 4.1 years ago by ★ 5.0k • written 4.9 years ago by • 0
0
votes
1
reply
1.4k
views
Should the design matrix for removeBatchEffect include an intercept?
removeBatchEffect limma
updated 6.0 years ago by 53k • written 6.0 years ago by ▴ 10
5
votes
7
replies
3.9k
views
logCPM to CPM conversion after removeBatchEffect()
edger removeBatchEffect cpm logCPM limma
6.7 years ago altintas.ali • 0
1
vote
6
replies
2.4k
views
edgeR removing batch effect before using expression data for clustering
edger r batcheffect clustering removeBatchEffect
updated 6.7 years ago by 68k • written 6.7 years ago by ▴ 120
2
votes
5
replies
5.7k
views
Batch Effect Correction
batch effect removebatcheffect edgeR rld DEseq2
7.5 years ago Antonio Ahn ▴ 10
1
vote
1
reply
2.1k
views
Batch effect removal before SC3?
SC3 batch effect removebatcheffect
updated 8.2 years ago by ▴ 150 • written 8.2 years ago by ▴ 10
11
votes
8
replies
13k
views
Limma and batch effect
limma differential gene expression clustering removebatcheffect
updated 8.4 years ago by 53k • written 8.4 years ago by ▴ 80
9
votes
8
replies
12k
views
removeBatchEffect options: design and covariates
limma removebatcheffect
updated 8.4 years ago by 53k • written 11.5 years ago by ▴ 550
0
votes
1
reply
3.1k
views
Error in solve.default(t(mod) %*% mod) : Lapack routine dgesv: system is exactly singular: U[4,4] = 0
sva R removebatcheffect
8.7 years ago aina.jene ▴ 10
2
votes
2
replies
2.7k
views
SVA package - ERROR: nvobj = sva(edata, mod, mod0, n.sv=n.sv)
sva removebatcheffect R
updated 8.8 years ago by ▴ 130 • written 8.8 years ago by ▴ 10
1
vote
3
replies
1.9k
views
Re-use limma beta coefficients
limma removebatcheffect
9.2 years ago Keifa ▴ 10
3
votes
6
replies
3.6k
views
is it necessary to check batch effect in this case? and how to?
svaseq combat sva RANseq batcheffect removebatcheffect
updated 9.3 years ago by ▴ 50 • written 9.3 years ago by ▴ 10
0
votes
3
replies
2.0k
views
How to remove nested batch effects with removeBatchEffect?
edgeR removeBatchEffect nested design
updated 9.3 years ago by ★ 29k • written 9.3 years ago by ★ 2.0k
4
votes
5
replies
3.5k
views
Removing unwanted variation (RUV) for paired analysis ?
ruvseq edger ruvg removebatcheffect
updated 10.0 years ago by ★ 29k • written 10.0 years ago by ▴ 10
9
votes
10
replies
15k
views
Is the following a correct usage of Limma's removeBatchEffect() for clustered heat map generation?
limma removeBatchEffect heatmap clustering
updated 10.1 years ago by ▴ 610 • written 10.1 years ago by ▴ 80
20 results • Page 1 of 1
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Comment: Postdoctoral Fellow (Computational Biology / Bioinformatics) - Neuroepigenetics by mudasarnaeem2020 • 0
Promoting UDISE+ Features on Social Media to Increase Awareness https://udisseplus.com/[enter link description here][1] [1]: https://ud…
Comment: DiffBind plot.profile error by a2sahaaaq2c • 0
To resolve technical errors like installation failures or login issues, first ensure your device allows in the security settings and that…
Comment: soGGi error by shepherl 4.3k
We have tried to contact the soGGi maintainer to have them update the package to the newer version of gglot2 but they have so far been unre…
Comment: using limma trend workflow in CAMERA by Gordon Smyth 53k
No, `trend.var=TRUE` and `trend=TRUE` are not needed in any voom pipeline, because the trend is already incorporated into the voom weights.
Comment: Questions about bacon QC and correction on EWAS results by Tikaaa2sahaaaq2c • 0
In the world of mobile games, the 88ef game download has gained traction for its performance driven design [free download][1], similar to …
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Answer: DiffBind differential analysis
Answer: Limma-voom sample weights and impact on DEG numbers
C: Why limma, edgeR, and DESeq did not implement fold change moderation first?
Comment: using limma trend workflow in CAMERA
C: z-score with DESeq2?
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