Add readme generation

• Added README generation.

• Refactor code.

Bug fix in argument

• Bug fix in --inputdir argument.

Bug fixes and added provenance flag

• Added --provenance flag to pass a path to json file with provenance information. This removes the
  necessity of input directory to be an RO-Crate.

• Bug fixes

  • Resolved an issue in embedding generation process where images associated with multiple genes were not correctly
    handled (ambiguous antibodies).

First release

• First release