Intro This post has two motivations: Demonstrate using ChatGPT’s specialized Data Analyst model to explore a problem starting with the initial problem statement, showing dialog, generated code (often much modified by me). This section is quite long, but I’d be interested in your thoughts about the options it suggests in...
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PCA for gene count comparison between NCBI Crassostrea gigas Annotation Release 101 and GCF_963853765.1-RS_2024_06 reference genomes
12-23-2024
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Compare genes after CGI id conversion attempt 1
In order to get 1:1 matching between genes in Roberto’s gene counts matrix and Emma’s gene counts matrix, they need to be the same type of identifier. Most genes in Emma’s are “LOC” and Roberto’s are “CGI”
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Exploring nf-core differential abundance workflow
We want to test out this nf-core workflow: https://github.com/nf-core/differentialabundance for our RNAseq data output.
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Re-run FetchNGS for Cvirg_Perkinsus_RNAseq
I realized I made a couple mistakes in getting the data downloaded for the Perkinsus RNAseq reanalysis.
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