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Custom I/O implementation for chaining lower bounds. Tests and Lints #606: Commit d01f416 pushed by sebschmi
1m 28s chainalign
chainalign
1m 28s
Evaluate each chained pair only once. Tests and Lints #605: Commit 6bf5e96 pushed by sebschmi
1m 47s chainalign
chainalign
1m 47s
Fix anti-primary gap computation in chainalign. Tests and Lints #604: Commit 120b144 pushed by sebschmi
1m 28s chainalign
chainalign
1m 28s
Automatically convert sequences to upper case. Tests and Lints #603: Commit 8a630a8 pushed by sebschmi
1m 24s chainalign
chainalign
1m 24s
More diagnostics. Tests and Lints #602: Commit 15203ae pushed by sebschmi
1m 24s chainalign
chainalign
1m 24s
Add progress indicator to chainalign. Tests and Lints #601: Commit e9f2cb0 pushed by sebschmi
1m 56s chainalign
chainalign
1m 56s
Fix k and more diagnostics. Tests and Lints #600: Commit 7ece69a pushed by sebschmi
1m 35s chainalign
chainalign
1m 35s
Fix empty jumps. Tests and Lints #599: Commit 46cc26b pushed by sebschmi
1m 27s chainalign
chainalign
1m 27s
Buggy complete version of tschainalign. Tests and Lints #598: Commit 8f3ad66 pushed by sebschmi
1m 24s chainalign
chainalign
1m 24s
Refine chain with primary alignments. Tests and Lints #597: Commit 82e3290 pushed by sebschmi
24s chainalign
chainalign
24s
Initialise chaining cost function with lower bounds. Tests and Lints #596: Commit af33335 pushed by sebschmi
23s chainalign
chainalign
23s
Implement anchor finding. Tests and Lints #595: Commit 47c9b90 pushed by sebschmi
2m 40s chainalign
chainalign
2m 40s
Connect tschainalign to tsalign (except AlignmentResult). Tests and Lints #594: Commit d1b9fc7 pushed by sebschmi
1m 42s chainalign
chainalign
1m 42s
Implement TS 34-jump exact chaining. Tests and Lints #593: Commit e17eb7d pushed by sebschmi
1m 26s chainalign
chainalign
1m 26s
Treat no target found as infinite costs. Tests and Lints #592: Commit 27294b9 pushed by sebschmi
1m 28s chainalign
chainalign
1m 28s
Test 12-jump exact chaining algo. Tests and Lints #591: Commit dff5724 pushed by sebschmi
1m 23s chainalign
chainalign
1m 23s
Fix TS ancestor coordinate interpretation. Tests and Lints #590: Commit 21df6b7 pushed by sebschmi
1m 26s chainalign
chainalign
1m 26s
Fix gap filling for gap-affine secondary alignment. Tests and Lints #589: Commit c32f72d pushed by sebschmi
1m 24s chainalign
chainalign
1m 24s
Implement TS 12-jump exact chaining. Tests and Lints #588: Commit 7040766 pushed by sebschmi
1m 23s chainalign
chainalign
1m 23s
Refactor alignment coordinates. Tests and Lints #587: Commit 3821835 pushed by sebschmi
24s chainalign
chainalign
24s
Restrict match runs in exact chaining. Tests and Lints #586: Commit 1d4d971 pushed by sebschmi
2m 17s chainalign
chainalign
2m 17s
Rename alignment modules. Tests and Lints #585: Commit ec3eaa2 pushed by sebschmi
1m 27s chainalign
chainalign
1m 27s
Implement gap filling for gap-affine alignment. Tests and Lints #584: Commit d073f98 pushed by sebschmi
1m 20s chainalign
chainalign
1m 20s
Precompute lower bounds also for 34-jump. Tests and Lints #583: Commit 1b86a71 pushed by sebschmi
1m 25s chainalign
chainalign
1m 25s
Precompute TS jump lower bounds for 12-jump. Tests and Lints #582: Commit 0fc75c7 pushed by sebschmi
1m 28s chainalign
chainalign
1m 28s
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