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Alternative ways to get genomic positions #150

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merged 21 commits into from
Jan 21, 2025
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@grst grst commented Jan 17, 2025

  • Add tests for get_genomic_position_from_gtf
  • make gtfparse an optional dependency (it tends to make trouble)
  • implement a get_genomic_positio_from_biomart function and advertise it as the new default

Fix #145 -> this is also the infamous gtfparse issue
Fix #7 -> implement workaround for non-gencode GTFs; also biomart is anyway better
Fix #144 -> alternative way to get genomic positions

@grst grst mentioned this pull request Jan 17, 2025
@grst grst force-pushed the biomart-genomic-positions branch from 377eafe to 803453b Compare January 19, 2025 20:34
@grst grst merged commit a39ae4f into main Jan 21, 2025
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@grst grst deleted the biomart-genomic-positions branch January 21, 2025 20:12
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