Pre-release 0.0.6

[szhan]

I think we are ready for the next pre-release once the following are done.

Write README for haploid LS HMM.

• [x] See #53.

Provide a Jupyter notebook demo-ing the main API functions for the haploid case.

• [x] See #123.

Check the following files, focussing on the functions relevant to haploid LS HMM:

• [x] See #113
  • [x] lshmm/api.py
  • [x] lshmm/core.py
  • [x] lshmm/fb_haploid.py
  • [x] lshmm/vit_haploid.py
  • [x] tests/lsbase.py
  • [x] tests/test_api_fb_haploid.py
  • [x] tests/test_api_vit_haploid.py
  • [x] tests/test_api_fb_haploid_multi.py
  • [x] tests/test_api_vit_haploid_multi.py
  • [x] tests/test_nontree_fb_haploid.py
  • [x] tests/test_nontree_vit_haploid.py

[szhan]

The priority is to get the next release with well-tested implementations for the haploid algorithms (with support for NONCOPY and MISSING allelic states).

@astheeggeggs Anything else you think we should do before the release? I think the following release should focus on the diploid implementations.

[szhan]

I think we are ready for a new release, @astheeggeggs!

[szhan]

Tagged https://github.com/astheeggeggs/lshmm/releases/tag/v0.0.6