* [Added] Reads.fas logic

* [Added] Minimal docs sphinx

* [Updated] CI Docker

* [Fixed] CI

* [Added] Logic for reads.fas generation

* [Added] Restructered doc and b2w interface

* [Added] argparse for b2w

* [Changed] Pytest parametrized by different b2w inputs; Old b2w version used to generate test data

* [Changed] Restructed testing for more general test sets

* [Added] tiling strategy class

* [Fixed] tests path

* [Added] Additional test data set
[Fixed] Numerous bugs in b2w

* [Added] Restructered doc and b2w interface

* [Added] argparse for b2w

* [Changed] Pytest parametrized by different b2w inputs; Old b2w version used to generate test data

* [Changed] Restructed testing for more general test sets

* [Added] tiling strategy class

* [Fixed] tests path

* [Added] Additional test data set
[Fixed] Numerous bugs in b2w

* [Added] Impl of maximum_reads

* [Added] Impl for minimum_reads

* [Added] Cpp bindings [Fixed] Mem leaks in dpm_sampler

* [Added] Old b2w with Cpp interface, long_deletion test [Fixed] All tests

* [Added] Workflow, [Removed] Examples that were converted to tests

* [Fixed] Missing deps

* [Fixed] GHA yaml

* [Fixed] Upload wheel

* [Fixed] tar gz

* [Added] Release flow

* [Added] Release without tag

* [Fix] Use short SHA as tag

* [Fix] setuptools

* [Fixed] docs
[Fixed] Version bump numpy ndarray issue

* [Fix] Cleanup files and file names

* [Fix] GH file naming convention

* [Fix] Release notes

* [Fix] CI tagging

* [Fix] CI tagging

* [Fix] CI restructured

* [Fix] CI name

* [Add] conda env

* [Fix] conda pin versions

* [Add] Bump versions [Remove] Dead code __future__

* [Changed] trimer tiling (triple)

* [Fix] Tuple vs list issue in tiling

* [Fix] Windows for primer tiling

* [Add] todos for incomplete code refactoring

* [Draft] shorah snv rewrite to more flexible windows

* [Removed] Release action because pip allows installs from branch

* [Added] Shorah shotgun -r is now optional

* [Fixed] Without region flag -r

* [Removed] amplicon mode

* [Added] Cleanup of shorah_snv with new csv format

* [Fixed] Output files and their location

* [Fixed] New output file

* [Fixed] Test except for long_del

* [Fixed] Long deletion test

* [Added] Also output fas for each window

* [Fixed] Unit tests

* [Added] Conformance flag to old version, resolved issue

* [Added] Also output fas for each window

* [Fixed] Unit tests

* [Added] Conformance flag to old version, resolved issue

* [Added] Improved docs