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I23 haplo conversion#27

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josiahseaman wants to merge 15 commits into

i23_haplo_conversion

Commits on Aug 20, 2019

#23 WIP: First round of conversions moving halponetwork to Graph.Node. Getters for .specimens, .upstream, .downstream. Now comes the harder work of thinking through the algorithm in database terms.
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Commits on Aug 22, 2019

#23 #3 #4 MAJOR: Added Zoom layer concept by giving Path.zoom so Paths can visit Nodes from any zoom layer. There is one path per accession per zoom layer. Paths and nodes contain links to their …
josiahseaman
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#23 WIP: Converting Haploblocker, automating transitions simplifies the code. But zoom filtering is becoming cumbersome.
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Commits on Aug 23, 2019

Commits on Aug 26, 2019

#26 Simple_merge converted by copying the entire GraphGenome, Paths, and NodeTraversals to a new ZoomLevel. I'm committing here because I want to save a working test state. Using pycharm, make su…
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Commits on Aug 27, 2019

#26 Simple_merge test cases improved. internal_build_individuals() is working.
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Commits on Sep 4, 2019

#26 Added xrange iterators
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Commits on Nov 6, 2019

First working version of random gfa generator. All positive strand
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Commits on Nov 21, 2019

Unknown: Dangling changes for halpo_conversion
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