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Species level information couldn't find with DADA2 bioconductor package
Metagenomics dada2 MicrobiomeData
14 months ago • updated 12 months ago abhisek001 • 0
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How to correctly interpret ALDEx2 output - differential abundance testing
MicrobiomeData ALDEx2
updated 2.4 years ago by • 0 • written 2.7 years ago by • 0
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Query regarding error in installation of "microbiomeutilities" R package
MicrobiomeData R microbiomeutilities Install
2.5 years ago abhisek001 • 0
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News: Virtual talk “Model Misspecification in Microbiome Studies” by Amy D Willis
MicrobiomeData Microbiome
2.7 years ago Levi Waldron ★ 1.1k
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HMP1-II Metagenomic Data
MicrobiomeData curatedMetagenomicData
2.7 years ago Pauline ▴ 20
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WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network Transcriptomics MicrobiomeData RNASEQ WCGNA
2.9 years ago Julieta • 0
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Editing Plots Generated Using MicrobiomeAnalyst
MicrobiomeData microbiome offtopic
updated 4.1 years ago by 68k • written 4.1 years ago by • 0
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Adding insect abundance data to SparCC Analysis
sparcc Microbiome microbiomeExplorer MicrobiomeData
updated 4.2 years ago by ★ 4.0k • written 4.2 years ago by • 0
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Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k
Your approach 1 is a bad idea. Subtracting the gene counts won't do what you want to do. I would personally check to see if there is any…
Comment: Can NanoString data be analyzed using DESeq2? by James W. MacDonald 68k
You can always discard, although you can also retain them to check for unexpected differences.
Comment: DESeq2 on NanoString Data by Michael Love 43k
Yes, if I discern a batch from EDA including looking at PCs, sample correlations, etc. It is close to SVA, we discuss both in the workflow…
Comment: DESeq2 on NanoString Data by thkapell ▴ 10
Thanks Michael. To this end, do you routinely use RUV or only when you detect a batch? It looks like it works in a similar fashion to SVA w…
Comment: Can NanoString data be analyzed using DESeq2? by thkapell ▴ 10
Thank you. I agree with your thoughts about the similarities of NanoString with RNA-seq. NanoString though, also has positive, negative pro…
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Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea
Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
Can NanoString data be analyzed using DESeq2?
Comment: Are voomByGroup and voomLmFit compatible?
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