Bioconductor Galaxy

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106

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Conference Community Galaxy GBCC2025 Bioconductor

24 days ago Maria Doyle ▴ 90

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DESeq2 Galaxy pca

updated 20 months ago by swbarnes2 ★ 1.4k • written 20 months ago by mbxdn1 • 0

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DESeq2 RNASeq Galaxy

updated 2.8 years ago by Michael Love 42k • written 2.8 years ago by István • 0

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ballgown StringTie galaxy rnaseq

updated 2.4 years ago by Kevin Blighe ★ 4.0k • written 4.3 years ago by lakshmi9c • 0

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605

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deseq2 galaxy

updated 4.6 years ago by Michael Love 42k • written 4.6 years ago by mikelirastor • 0

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deseq2 galaxy

7.6 years ago gkuffel ▴ 10

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bioconductor next-generation sequencing galaxy

updated 7.9 years ago by Lucas Schiffer ▴ 240 • written 7.9 years ago by efraim.culfa • 0

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rnaseq galaxy deseq2

updated 8.7 years ago by Michael Love 42k • written 8.7 years ago by Marcelo Pereira ▴ 70

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1.3k

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DESeq2 Galaxy

updated 8.7 years ago by Michael Love 42k • written 8.7 years ago by Marcelo Pereira ▴ 70

9 results • Page 1 of 1

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Comment: limma technical repeat correction by Gordon Smyth 51k

I have never analysed SomaScan data, so I cannot make any specific recommendations about how to analyse such data. I have however analysed …

Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela by Gordon Smyth 51k

voom() does not transform the data to be homoscedastic. Quite the opposite, it computes precision weights that reflect the mean-variance tr…

Answer: Package needs internet access by James W. MacDonald 67k

It's going to need internet access. When you switch to NCBI seqlevels, you are calling this function ``` .fetch_chrom_sizes_from_UCSC_d…

Answer: List of DEGs belonging to an Agilent-single color microarray experiment using Li by Gordon Smyth 51k

The first coefficient in your linear model appears to be an intercept term. In this context, you should not be using `method="global"` beca…

Comment: Package needs internet access by firestar ▴ 20

Updated with more code.

Votes

Answer: Using voom-transformed counts for unsupervised analyses (PCA, Random Forest, Ela

Comment: Harmonizing Gene Annotations for Meta-Analysis of GSE68183 and GSE80178

Dotplot from enricher outputting very few genes

Answer: [How to construct a model.matrix ]

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