TL;DR - I went through the current status of my first two chapters to get a status report of to-dos to complete rough drafts during the writing portion of today’s hack-a-thon.
Link to E5 coral lncRNA ID and expression manuscript (view only)
Link to CEABiGR oyster lncRNAs manuscript (view only)
E5 coral lncRNA ID and expression
Overall requires a lot more attention and writing
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Need to integrate parts of this chapter that are already present in deep-dive and deep-dive-expression projects, including some of the writing I did in those manuscripts.
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Must finish Pearson’s correlations and finish summary and results figures. The analysis piece here is pretty straightforward, especially now that we have nailed down the final lncRNA ID pipeline.
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Paperpile associated with this chapter appears relatively complete with all the sources necessary to move forward with writing.
CEABiGR oyster lncRNA
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Has almost all of the necessary parts to move forward with writing and generation of results figures.
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Intro section has summarized information of associated papers, and there should be enough reference papers already found to write this section.
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The primary missing analysis is co-expression and cross-species comparison. Co-expression should be relatively straightforward as Ariana and I went through appropriate settings for WGCNA for this data and/or I could mimic the Pearson’s correlation framework from E5. Cross-species comparison should hopefully be a matter of blasting all identified species against one another.