Instructions to install from pip and github

[talonchandler]

pip install waveorder installs the latest stable release from PyPI, which is often incompatible with the latest changes in the GitHub README.

This change clarifies two major ways to install: (1) from PyPI, and (2) from Github for running examples.

[mattersoflight]

@talonchandler in addition to above, please account for the discussion of switching over to iohub 0.2.0. I will also relay the discussion with @tayllatheodoro soon around how waveorder and biahub can operate better. Let's handle installation instructions and dependencies in this PR. The code for interoperability can be a quick follow up.

[talonchandler]

please account for the discussion of switching over to iohub 0.2.0

I might be missing context here, but waveorder's main branch now depends on iohub>=0.2,<0.3 (thanks @ziw-liu for this fix #448).

[mattersoflight]

@talonchandler

I might be missing context here.
As I mentioned, https://github.com/czbiohub-sf/mantis-analysis-template still uses recOrder. @tayllatheodoro needs guidance on how to switch over to the new waveOrder.

I will also relay the discussion with @tayllatheodoro soon around how waveorder and biahub can operate better.

A good structure is that the waveOrder calls are wrapped in biahub's API and used in mantis-analysis-pipeline, ops-analysis-pipeline etc. This PR could pair well with the other PR you and Alex have started (czbiohub-sf/biahub#94). What do you think? We can discuss this on an issue on biahub.

After you merge AQLM demos and this README, please switch biahub's reconstruction CLI over to use waveorder.

[mattersoflight]

I think clear and accurate guidance on how to setup conda environment to run examples is sufficient. When we setup the docs with @amitabhverma, we should figure out how we can include the example gallery, such as this for iohub: https://czbiohub-sf.github.io/iohub/main/auto_examples/index.html

@talonchandler can you start an issue on this or point me to one?

[mattersoflight]

Hi @talonchandler this version of README seems consistent with #446. Please check and we can merge these two PRs.

[talonchandler]

Thanks @mattersoflight, just added your suggestions with minor changes and this is ready to go. Ready to approve and merge IMO.