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17 implement support of the single end data#135

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nsyzrantsev merged 9 commits intomainfrom
17-implement-support-of-the-single-end-data
Feb 4, 2026
Merged

17 implement support of the single end data#135
nsyzrantsev merged 9 commits intomainfrom
17-implement-support-of-the-single-end-data

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@opalinn opalinn commented Jan 14, 2026

  1. Add a new parameter --single or --paired (depending on the data type) to the command used to run the pipeline

  2. Add support of single-end RNA-seq data to fastp step (process FastpSingle)

  3. Add fixture and minimal integration test for single-end RNA-seq data

  4. Update documentation (Usage section)

@opalinn opalinn linked an issue Jan 14, 2026 that may be closed by this pull request
@nsyzrantsev nsyzrantsev merged commit 57f9b98 into main Feb 4, 2026
@nsyzrantsev nsyzrantsev deleted the 17-implement-support-of-the-single-end-data branch February 4, 2026 18:11
nsyzrantsev added a commit that referenced this pull request Feb 4, 2026
Resolved conflict in conf/modules.config by combining:
- Published container image from add-ci-cd (ghcr.io/bostongene/pyigmap-fastp:1.0.0)
- FastpSingle process support from main (#135)

Co-Authored-By: Claude Sonnet 4.5 <noreply@anthropic.com>
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Add support of single-end reads (rnaseq mode only)

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