antibody-utils

Utilities for antibody sequence and structure analysis: numbering, region definitions, sequence comparison, VH/VL orientation and more.

Contents

• Installation
  • With uv
  • With pip
  • Optional extras
  • Installing for development
• Quick start
  • Number a sequence
  • Extract the CDRs
  • Find sequence liabilities
  • Read a structure
  • Compare sequences
  • Use a numbered structure file
  • Measure the VH/VL orientation
  • Save part of a structure
• Numbering schemes and region definitions
  • Numbering schemes
  • Region definitions
  • Assigning regions
• Working with structures
  • Reading a structure
  • Antibody chains
  • Fvs
  • Selecting and saving
• VH/VL orientation and RMSD
  • ABangle
  • RMSD
  • Superposing coordinates
• Migrating from ABDB
  • What changes
  • Equivalent names
  • Not included
• Citing
  • antibody-utils
  • Methods and data
• Contributing to antibody-utils
  • Setting up
  • Running the tests
  • Conventions
  • Proposing a change
  • Releasing
• API reference
  • antibody_utils