User: jport

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jport10
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10
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New User
Location:
United States
Last seen:
4 years, 6 months ago
Joined:
4 years, 6 months ago
Email:
j****@stanford.edu

Posts by jport

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Handling biological replicates when analyzing differential abundance of OTUs with DESeq2
... I had a question regarding analysis of differential abundance of OTUs using DESeq2. As an example, I have 3 samples with 3 replicates each, and want to compare whether selected OTUs are significantly different across all habitats (similar to ANOVA). The count table below shows the setup. With the DE ...
deseq2 written 4.5 years ago by jport10 • updated 4.5 years ago by Michael Love23k
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Inputting counts of zero into DESeq2
... In my OTU data matrix that I would like to input into DESeq2, many of the count values are zeros. I am able to create a DESeqDataSetFromMatrix object from this matrix with the following command: dds=DESeqDataSetFromMatrix(csv, csv_meta, design=~Habitat) But when I run the DESeq command I get the f ...
deseq2 written 4.6 years ago by jport10 • updated 4.0 years ago by piensaglobalmente10

Latest awards to jport

Great Question 4.5 years ago, created a question with more than 5,000 views. For Inputting counts of zero into DESeq2
Popular Question 4.5 years ago, created a question with more than 1,000 views. For Inputting counts of zero into DESeq2
Popular Question 4.5 years ago, created a question with more than 1,000 views. For Inputting counts of zero into DESeq2

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