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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
1
vote
2
replies
848
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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
659
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HMP1-II Metagenomic Data
MicrobiomeData
curatedMetagenomicData
17 months ago • updated 16 months ago
Pauline
▴ 20
0
votes
1
reply
871
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Adding insect abundance data to SparCC Analysis
sparcc
Microbiome
microbiomeExplorer
MicrobiomeData
updated 2.9 years ago by
Kevin Blighe
★ 3.9k • written 2.9 years ago by
GlycineMax
• 0
0
votes
1
reply
904
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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
1
vote
0
replies
509
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News:
Virtual talk “Model Misspecification in Microbiome Studies” by Amy D Willis
MicrobiomeData
Microbiome
16 months ago
Levi Waldron
★ 1.1k
0
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0
replies
522
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WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network
Transcriptomics
MicrobiomeData
RNASEQ
WCGNA
19 months ago
Julieta
• 0
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Comment: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
limma most certainly is available. It installs in R 4.4.0 and Bioc 3.19 with no issues at all. If you're having trouble with Bioc installa…
Comment: package goseq seems to be not available on the latest version of R
by
Patrycja
▴ 20
limma package also isn't available.Is there any information when these packages will be available?
Comment: Why does GSEA on edgeR results for randomized samples give highly significant p-
by
Chris
• 0
Thanks Gordon for the advice! I ran fgsea, gsva and camera(), the most significant pathways are different. For the purpose of finding pathw…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Check the number of bootstrapped data per chromosome compared to the original, and then you can also look at its distribution. For this it'…
Comment: DNAString: Standard checksum function?
by
Henrik Bengtsson
★ 2.4k
For completeness: SEGUID v2 (https://www.seguid.org/), implemented in CRAN package **[seguid](https://cran.r-project.org/package=seguid)*…
Votes
Answer: Why does GSEA on edgeR results for randomized samples give highly significant p-
Handling multiple differential expression comparisons
Answer: fgsea significant result
Answer: fgsea significant result
package goseq seems to be not available on the latest version of R
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