Bioconductor Co-expression

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biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna

5 months ago Fernanda • 0

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1.1k

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network co-expression WGCNA

updated 2.5 years ago by andres.firrincieli ▴ 50 • written 2.5 years ago by ikumar2000 ▴ 10

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1.1k

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wgcna co-expression

updated 5.6 years ago by mikhael.manurung ▴ 280 • written 5.6 years ago by Lin ▴ 50

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1.2k

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wgcna network co-expression rnaseq

updated 5.9 years ago by Peter Langfelder ★ 3.0k • written 5.9 years ago by Arindam ▴ 80

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5.2k

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WGCNA R network co-expression

updated 2.1 years ago by Peter Langfelder ★ 3.0k • written 5.9 years ago by avelarbio46 ▴ 10

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Comment: sesameDataCache is not work properly on my system by Samreen • 0

Any luck with this? I have tried all of the above and it still doesn't work. This is my session info and I'm on a cluster computing environ…

Answer: Using tximport for kallisto aligned TOIL data by James W. MacDonald 68k

If you just have the transcript data, you probably don't need (and maybe cannot use) `tximport`. Instead you could just do the naive thing …

Answer: Reading gene expression data in GPR format and converting it to xlsx format by James W. MacDonald 68k

Setting aside the inadvisability of putting these data into Excel (and I should point out that these data are not single-cell, but instead …

Comment: concentration tables suitable as input for new packages? by wilkinson • 0

I am grateful for your response. Software such as "Spectra" may parse MS-data to generate tables of concentrations, for instance. But inste…

Comment: Removing UTR from GTF for gene quantification by ATpoint ★ 4.7k

Consider asking at biostars or bioinformatics reddit, since this is not directly related to a Bioconductor problem. Anyway, a couple of th…

Votes

Answer: Differential expression of proteins using somascan data

Answer: Surprising behavior for DEXseq dispersion estimate plot?

Answer: Handle zero effective gene length when tximport RSEM results

Handle zero effective gene length when tximport RSEM results

How to remove genes with 0 counts in tximport?

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