hybkit Toolkit

The hybkit toolkit contains command-line scripts for analysis and manipulation of hyb and fold files. Scripts are implemented in Python3, and the hybkit module must be on the user's PYTHONPATH for script execution.

The command-line options and flags are generated with the Python3 argparse module. Relevant settings pertaining to specific hybkit classes are accessible via command-line flags, as demonstrated in the "shell_analysis" implementations in the Example Analyses.

This version of hybkit includes the following executables:

Utility	Description
hyb_check	Parse a hyb (/fold) file and check for errors
hyb_eval	Evaluate hyb (/fold) records to identify segment types and miRNAs
hyb_filter	Filter a hyb (/fold) file to a specific subset of sequences
hyb_analyze	Perform a type, miRNA, summary, or target analysis on a hyb (/fold) file

Detailed descriptions and usage information are available at each respective script page.

Hybkit Toolkit Executables:

• hyb_check
  • Named Arguments
  • Hyb Record Settings
  • Hyb File Settings
  • Fold Record Settings
  • Hyb-Fold Iterator Settings
• hyb_filter
  • Named Arguments
  • Hyb Record Settings
  • Hyb File Settings
  • Fold Record Settings
  • Hyb-Fold Iterator Settings
• hyb_eval
  • Named Arguments
  • type Analysis Options
  • Hyb Record Settings
  • Hyb File Settings
  • Fold Record Settings
  • Hyb-Fold Iterator Settings
• hyb_analyze
  • Named Arguments
  • Hyb Record Settings
  • Hyb File Settings
  • Fold Record Settings
  • Hyb-Fold Iterator Settings
  • Analysis Settings