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ALDEx2
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How to correctly interpret ALDEx2 output - differential abundance testing
MicrobiomeData
ALDEx2
updated 12 months ago by
Lucie
• 0 • written 16 months ago by
RvH
• 0
1
vote
4
replies
1.2k
views
How to create an aldex.clr object from a "selex" data table
ALDEx2
22 months ago
Greg
• 0
0
votes
0
replies
890
views
Aldex2 feature request - controlling for additional variables
ALDEx2
ALDEx
microbiome
16s
5.4 years ago
mstagliamonte
▴ 10
2
votes
0
replies
850
views
Aldex2 error following tutorial - complex study design
software error
aldex2
4.9 years ago
mstagliamonte
▴ 10
0
votes
0
replies
649
views
Aldex2 BioCParallel issues
aldex2
updated 4.8 years ago by
Martin Morgan
25k • written 4.8 years ago by
jc235601
▴ 20
0
votes
0
replies
537
views
ALDEx2 Error Message: "dim(X) must have a positive length" when using aldex.clr() with denom="iqlr"
Metagenomics
IQLR
ALDEx2
16 months ago
cwarden45
• 0
0
votes
0
replies
488
views
Model matrix for a complex study design using aldex.glm module from ALDEx2 R package
ALDEx2
modelmatrix
covariates
9 months ago
amir
• 0
7 results • Page
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Answer: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
James W. MacDonald
65k
You cannot correct for technical variability due to batch if samples are nested in batch. The technical and biological differences are comp…
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
James W. MacDonald
65k
You will need to show some reproducible code for anybody to track this down. Please note that `DESeq2` has been used by thousands of people…
Comment: Batch/method effect correction on a cohort of patients with RUVseq and DESeq2
by
Alexandre
• 0
My code for the sessionInfo() . If the pictures are too big, I will downsize them. THank you again for reading my post ! ```r > sessionInf…
Comment: Reproducibility issue with scran together with lapply and BiocParallel
by
ATpoint
★ 4.0k
Thanks Aaron for the response. RNGseed (for me) has no effect. I actually stumbled over this in one of my analysis where I have a constant …
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
by
winwater0928
• 0
Thank you for your comment! 1)"Your contrast is comparing LGR5 to Homeostasis." means (Lgr5)/(Homeostasis). Is it right? Then, I think if…
Votes
C: null model and DEXSeqDataSet object in DEXSEQ
A: Are published RNA seq data analyses often wrong in calculating p-values and FDR?
A: How to explain how DESeq2 works to someone with zero bioinformatics background?
Answer: Interpret plot from DiffBind
Answer: How to retrieve gene ontology GO class from gene list?
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