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UID:pretalx-scipy-2026-NEKFB8@pretalx.com
DTSTART;TZID=CST:20260715T152500
DTEND;TZID=CST:20260715T155500
DESCRIPTION:Genomic workflows remain tightly coupled to specialized file fo
 rmats\, forcing researchers to build brittle pipelines of format-specific 
 CLI tools. We present projects that help shift this emphasis away from fil
 e parsing and towards declarative querying. Oxbow is a library that projec
 ts common genomic formats into Apache Arrow\, enabling zero-copy integrati
 on with data frame libraries and analytics engines. GIQL (Genomic Interval
  Query Language) is an extended SQL dialect supporting genomic interval op
 erations and semantics that transpiles to standard SQL\, making genomic qu
 eries composable\, readable\, and backend-agnostic. Together\, this archit
 ecture also facilitates the integration of genomic data into data warehous
 e and lakehouse platforms as well as agentic MCP workflows.
DTSTAMP:20260715T021055Z
LOCATION:University Hall
SUMMARY:Declare\, Don't Parse: Composable genomic analysis with GIQL and Ox
 bow - Nezar Abdennur\, Conrad Bzura
URL:https://pretalx.com/scipy-2026/talk/NEKFB8/
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