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MicrobiomeData
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Species level information couldn't find with DADA2 bioconductor package
Metagenomics
dada2
MicrobiomeData
10 months ago • updated 7 months ago
abhisek001
• 0
0
votes
3
replies
3.0k
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How to correctly interpret ALDEx2 output - differential abundance testing
MicrobiomeData
ALDEx2
updated 2.1 years ago by
Lucie
• 0 • written 2.4 years ago by
RvH
• 0
1
vote
2
replies
1.4k
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Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData
R
microbiomeutilities
Install
2.2 years ago
abhisek001
• 0
1
vote
0
replies
746
views
News:
Virtual talk “Model Misspecification in Microbiome Studies” by Amy D Willis
MicrobiomeData
Microbiome
2.4 years ago
Levi Waldron
★ 1.1k
2
votes
2
replies
965
views
HMP1-II Metagenomic Data
MicrobiomeData
curatedMetagenomicData
2.4 years ago
Pauline
▴ 20
0
votes
0
replies
780
views
WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network
Transcriptomics
MicrobiomeData
RNASEQ
WCGNA
2.6 years ago
Julieta
• 0
0
votes
1
reply
1.3k
views
Editing Plots Generated Using MicrobiomeAnalyst
MicrobiomeData
microbiome
offtopic
updated 3.8 years ago by
James W. MacDonald
68k • written 3.8 years ago by
gwagz8
• 0
0
votes
1
reply
1.2k
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Adding insect abundance data to SparCC Analysis
sparcc
Microbiome
microbiomeExplorer
MicrobiomeData
updated 3.8 years ago by
Kevin Blighe
★ 4.0k • written 3.8 years ago by
GlycineMax
• 0
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Comment: GSEA preranked analysis downstream of DEseq2
by
Ajay
• 0
`logFC * -log10(pval)` seems to be the pi-score proposed in this [paper][1] [1]: https://pmc.ncbi.nlm.nih.gov/articles/PMC3957066/
Comment: error in ChAMP loading file
by
janwilseo
• 0
Any update on this post? I also had an issue with this. [erosion control](https://charlestonhydroseeding.com/)
Answer: CluserProfiler message "No gene can be mapped"
by
James W. MacDonald
68k
Two things. First, the order of your term2gene is backwards (should be term and then gene, like the name), and by default `enricher` adjust…
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis
by
donnycrimson
• 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender
by
donnycrimson
• 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Votes
DiffBind; Error: No sites have activity greater than filter value
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
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