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ALDEx2
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Model matrix for a complex study design using aldex.glm module from ALDEx2 R package
ALDEx2
modelmatrix
covariates
16 months ago
amir
• 0
0
votes
3
replies
2.3k
views
How to correctly interpret ALDEx2 output - differential abundance testing
MicrobiomeData
ALDEx2
updated 19 months ago by
Lucie
• 0 • written 23 months ago by
RvH
• 0
0
votes
0
replies
733
views
ALDEx2 Error Message: "dim(X) must have a positive length" when using aldex.clr() with denom="iqlr"
Metagenomics
IQLR
ALDEx2
23 months ago
cwarden45
• 0
1
vote
4
replies
1.5k
views
How to create an aldex.clr object from a "selex" data table
ALDEx2
2.4 years ago
Greg
• 0
0
votes
0
replies
765
views
Aldex2 BioCParallel issues
aldex2
updated 5.4 years ago by
Martin Morgan
25k • written 5.4 years ago by
jc235601
▴ 20
2
votes
0
replies
1.0k
views
Aldex2 error following tutorial - complex study design
software error
aldex2
5.4 years ago
mstagliamonte
▴ 10
0
votes
0
replies
1.1k
views
Aldex2 feature request - controlling for additional variables
ALDEx2
ALDEx
microbiome
16s
5.9 years ago
mstagliamonte
▴ 10
7 results • Page
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Answer: [How to construct a model.matrix ]
by
Gordon Smyth
51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge
by
rania.alanany
• 0
Hi Robert, Thank you for the explanation, But I am still little bit confused, Is the annotation package (TxDb.Hsapiens.UCSC.hg38.knownGene)…
Comment: Merge Replicates vs Mixed Model
by
abadgerw
• 0
@gabrielhoffman any insight?
Comment: makeContrastsDream for Interaction
by
abadgerw
• 0
@gabrielhoffman any insight?
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
by
Michael Love
42k
That is the rows that did converge.
Votes
A: Some questions for remove batch effect by using mnnCorrect
A: Recommendations for combining multiple 10x runs into one SingleCellExperiment
Answer: [How to construct a model.matrix ]
Answer: Handling biological replicates in DESeq2
Comment: biomaRt rnorvegicus_gene_ensembl not available anymore
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