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DuckDB-powered pangenome Swiss Army knife
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test_domagi.py
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2026-08-28
Bridge extracted subpaths.
Arun Isaac
2026-08-28
Split subpaths selected by extract path range into discrete fragments.
Arun Isaac
When `domagi extract` is given a path range, it may select discontinuous fragments of other paths. These fragments must be output as separate paths, not erroneously merged together.
2026-08-27
Provide type and metavar for depth --bed-input.
Arun Isaac
We also fix the test to pass in a string rather than a Path.
2026-08-26
Do not traverse graph when extracting segments in path range.
Arun Isaac
2026-08-26
Traverse symmetrically in both directions with extract.
Arun Isaac
2026-08-26
Test domagi extract on node extraction.
Arun Isaac
2026-08-21
Build duckdb database only once in a setup fixture.
Arun Isaac
2026-08-21
Add chop subcommand.
Arun Isaac
2026-08-21
When testing, canonicalize links before comparing them.
Arun Isaac
2026-08-15
Error out if user-specified path does not exist.
Arun Isaac
2026-08-15
Add domagi overlap --paths.
Arun Isaac
2026-08-15
When sorting a data frame by a single column, only pass in a string.
Arun Isaac
2026-08-15
Add domagi overlap.
Arun Isaac
2026-08-14
Reverse complement sequences as required in FASTA.
Arun Isaac
2026-08-14
Test paths --fasta.
Arun Isaac
2026-07-27
Initial commit
Arun Isaac
