Issues

• Create separate script to generate local blast database with requested species

  BradhamLab/Lverage#23 · Filter by author AnthonyGarza124 opened on Sep 28, 2026
  

• Setup the local blast database for blast usage.

  BradhamLab/Lverage#22 · Filter by author AnthonyGarza124 opened on Sep 28, 2026
  

• Start testing lverage up to post-global alignment. Determine error boundaries, robustness, redundancy, etc

  BradhamLab/Lverage#21 · Filter by author AnthonyGarza124 opened on Sep 28, 2026
  2

• Create interface for command-line usage of lverage pipeline

  BradhamLab/Lverage#20 · Filter by author AnthonyGarza124 opened on Sep 28, 2026
  

• Implement documentation for handling of fasta-files.

  BradhamLab/Lverage#19 · Filter by author AnthonyGarza124 opened on Sep 28, 2026
  

• Benchmark differences between python package orffinder and NCBI's orffinder (executable)

  BradhamLab/Lverage#18 · Filter by author AnthonyGarza124 opened on Sep 28, 2026
  

• Implement ORF searcher module.

  BradhamLab/Lverage#17 · Filter by author AnthonyGarza124 opened on Sep 28, 2026
  

• Reject invalid numeric values for parameters for all modules that may accept them

  BradhamLab/Lverage#16 · Filter by author AnthonyGarza124 opened on Sep 28, 2026

• Create or check if the global alignment algorithm already exists

  BradhamLab/Lverage#14 · Filter by author AnthonyGarza124 opened on Sep 22, 2026
  2

  

• local BLAST query coverage calculation needs testing

  BradhamLab/Lverage#10 · Filter by author AnthonyGarza124 opened on Sep 21, 2026
  

• Pfamscan needs to have local option

  BradhamLab/Lverage#7 · Filter by author AnthonyGarza124 opened on Sep 14, 2026
  

• Setup PfamScan online usage

  BradhamLab/Lverage#5 · Filter by author AnthonyGarza124 opened on Sep 10, 2026
  

• Document what you needed to personally install and setup for future Singularity setup

  BradhamLab/Lverage#4 · Filter by author AnthonyGarza124 opened on Sep 10, 2026
  1