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MicrobiomeData
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How to correctly interpret ALDEx2 output - differential abundance testing
MicrobiomeData
ALDEx2
updated 13 months ago by
Lucie
• 0 • written 17 months ago by
RvH
• 0
0
votes
1
reply
903
views
Editing Plots Generated Using MicrobiomeAnalyst
MicrobiomeData
microbiome
offtopic
updated 2.8 years ago by
James W. MacDonald
65k • written 2.8 years ago by
gwagz8
• 0
0
votes
1
reply
871
views
Adding insect abundance data to SparCC Analysis
sparcc
Microbiome
microbiomeExplorer
MicrobiomeData
updated 2.8 years ago by
Kevin Blighe
★ 3.9k • written 2.8 years ago by
GlycineMax
• 0
1
vote
2
replies
846
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Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData
R
microbiomeutilities
Install
14 months ago
abhisek001
• 0
2
votes
2
replies
656
views
HMP1-II Metagenomic Data
MicrobiomeData
curatedMetagenomicData
17 months ago • updated 16 months ago
Pauline
▴ 20
0
votes
0
replies
522
views
WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network
Transcriptomics
MicrobiomeData
RNASEQ
WCGNA
19 months ago
Julieta
• 0
1
vote
0
replies
507
views
News:
Virtual talk “Model Misspecification in Microbiome Studies” by Amy D Willis
MicrobiomeData
Microbiome
16 months ago
Levi Waldron
★ 1.1k
7 results • Page
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Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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