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Sub-modules to create
- webscraping_api
- plant cyc
- SRA
- ENA
- ChatGPT?
- data-parsing
- fasta manipulation. read / write fasta files. Removing sequences based on SeqID. Retaining primary transcripts based on SeqID and sequence length.
- DGE results csv from deseq 2
- kallisto run_info.json parsing
- kallisto abundance.tsv parsing and exp_mat concatenation
- mapman annotation output parsing (include option for first and second bin)
- correlation-network
- generate PCC /SCC / Bicor GCNs
- load and write network
- analyses
- Permutation functional enrichment
- comparative network calculations
- Data-visualization
- volcano-plots
- dot-plots
- heat-maps
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