Bioconductor Qiime

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r phyloseq import_biom otu qiime

updated 8.5 years ago by mcmurdie ▴ 20 • written 8.5 years ago by moanam • 0

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1.6k

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metagenomeseq qiime biom

updated 7.7 years ago by Joseph Nathaniel Paulson ▴ 280 • written 7.7 years ago by dr.richrodrigues • 0

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2.3k

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R qiime

updated 7.1 years ago by James W. MacDonald 65k • written 7.1 years ago by trichter • 0

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988

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deseq2 qiime

updated 6.5 years ago by Michael Love 41k • written 6.5 years ago by syafiqkamarulazman • 0

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1.4k

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deseq2 R microbiome phyloseq qiime

updated 6.4 years ago by Michael Love 41k • written 6.4 years ago by ssingh59 • 0

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1.9k

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biom json hdf5 qiime phyloseq

updated 7.5 years ago by Bernd Fischer ▴ 550 • written 7.5 years ago by newmanss • 0

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807

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deseq2 R fedora qiime

updated 5.7 years ago by Michael Love 41k • written 5.7 years ago by kperlejewski • 0

7 results • Page 1 of 1

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Answer: OrgDb for maize by Guido Hooiveld ★ 3.9k

I notice the data you are working with is based on `ensembl` ids. This is important, because the `OrgDb` are annotation databases that are …

Comment: Theoretical WGCNA Question by Garrett • 0

Thanks Peter!

Comment: FGSEA pre-ranked input in increasing order or decreasing by sropri • 0

Thank you!

Comment: FGSEA pre-ranked input in increasing order or decreasing by alserg ▴ 240

They are reorder in the decreasing order.

Comment: significant difference of p-values with dream() after updating VariancePartition by Le • 0

Thanks for your reply @gabrielhoffman ! I've been trying to isolate the changes, and v1.32.5 had the same results as v1.33.1 while v1.30.0…

Votes

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

Comment: DEXSeq DEXSeqDataSet count matrix duplication

Comment: Error in champ.load(): The following specified files do not exist

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