Purpose
This post is related to https://github.com/RobertsLab/resources/issues/2251
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Creating a GMT file to use with GSEA
Motivation Based on successful nf-core/differentialabundance runs, we wished to augment them with gene ontology information in order to examine relationships with biological functions of the differentially expressed genes. nf-core/differentialabundance supports this, and requires one or more gene matrix files. The present task was to create a GMT file for C....
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Run nf-core differentialabundance pipeline on _C.virg_ data
Main Goals:
Understand how Diff. Abundance pipeline works
Understand the differences in immune responses that lead to tolerant and sensitive phenotypes
compare fed vs. injected animals from study 4 (Steve)
compare breeds in dosed animals from study 1 (Shelly)
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Run ceasmallr (C. virginica) WGBS data through nf-core methylseq pipeline
Data needed:
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Reprocess TAG-seq data with different FastP parameters
This post is related to github issues # 26 and # 28
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