Showing : qiime • reset
0
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266
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DESeq2 intstallation error on fedora
deseq2 R fedora qiime
updated 2.9 years ago by 33k • written 2.9 years ago by • 0
1
vote
1
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633
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Getting OTUID rather than Taxonomy from Results function in DESeq2
deseq2 R microbiome phyloseq qiime
updated 3.5 years ago by 33k • written 3.5 years ago by • 0
1
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2
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506
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QIIME Differential abundance on multiple studies
deseq2 qiime
updated 3.7 years ago by 33k • written 3.7 years ago by • 0
1
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1
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1.6k
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QIIME, R and bioconducter
R qiime
updated 4.2 years ago by 57k • written 4.2 years ago by • 0
0
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1
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1.1k
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phyloseq biom json format conversion needed to hdf5 format for qiime
biom json hdf5 qiime phyloseq
updated 4.6 years ago by ▴ 540 • written 4.6 years ago by • 0
2
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1
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828
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Metagenome seq errors using biom (1.3) file
metagenomeseq qiime biom
updated 4.9 years ago by ▴ 280 • written 4.9 years ago by • 0
2
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9
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15k
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Error in file(con, “r”) : cannot open the connection
r phyloseq import_biom otu qiime
updated 5.7 years ago by ▴ 20 • written 5.7 years ago by • 0
7 results • Page 1 of 1
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Replies
Answer: Unable to install bioconductor packages by Mike Smith ★ 5.0k
There looks like maybe two different problems here. Let's try fixing the installation of **BiocManager** first, and then maybe everything …
Comment: No counts, just fold change data by Manal • 0
Thank you for that. I did now. I am just hesitant if the values logFC logCPM LR PValue FDR coming out from EdgeR are the valuable, but the …
Comment: No counts, just fold change data by Manal • 0
No, not submitted in any database, and not sure if it is LogFC, they only mentioned fold change above the threshold 1.5. The highest value …
Comment: PCA and heatmaps: most variable genes selection by Clara • 0
Thank you!
Answer: PCA and heatmaps: most variable genes selection by Michael Love 33k
We focus on the top genes by variance (in transformed space) because this focuses the plot on genes with most differences. This is kind of …
Votes
Comment: Confusion using edgeR and spline-fitted data
Interpretation of confidence interval values for logFC returned from topTable function in limma with microarray dataset
C: limma report logFC confidence interval?
Answer: No counts, just fold change data
Answer: No counts, just fold change data
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