nasa / nasa/GeneLab_Data_Processing

[bulkRNASeq] NF_RCP 2.0.0 - Custom genomes are limited to organisms found in reference_table

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Since May 23, 2025.

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Description

Describe the bug
Custom genome support is limited to organisms found in the pre-defined reference_table

To Reproduce
Steps to reproduce the behavior:

  1. Run the NF_RCP 2.0.0 main workflow on a dataset with an organism not belonging to the reference_table

Expected behavior
The workflow should use the provided reference_source, reference_version, reference_fasta, and reference_gtf to build the correct references.

Additional context

  • Assay: bulkRNASeq
  • Workflow: NF_RCP
  • Workflow version: 2.0.0

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