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@NIB-SI

National Institute of Biology

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  1. pISA-tree pISA-tree Public

    pISA-tree: Standard project directory tree ( ISA framework compliant )

    Batchfile 7 3

  2. DiNAR DiNAR Public

    Differential Network Analysis in R

    HTML 1 1

  3. circadian-lesion circadian-lesion Public

    C++

  4. BoolDog BoolDog Public

    A Python package for analyses of Boolean and semi-quantitative Boolean networks.

    Python

  5. skm-tools skm-tools Public

    Scripts and utilities for leveraging SKM resources

    Jupyter Notebook 3

Repositories

Showing 10 of 48 repositories
  • skm-pss-adapters Public

    Export adapters from PSS neo4j db to other (flatfile) formats

    NIB-SI/skm-pss-adapters’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 19, 2025
  • polyase Public

    A package for analyzing allele-specific expression in polyploid organisms

    NIB-SI/polyase’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 18, 2025
  • longrnaseq Public

    Long-read RNA-seq nextflow pipeline for quantification, novel isoform discovery and quality control

    NIB-SI/longrnaseq’s past year of commit activity
    HTML 1 MIT 0 0 0 Updated Nov 18, 2025
  • Nuclei-segmentation Public

    Segmentation of nuclei, chloroplasts or both, and remaining regions. Area, mean intensity, histograms export.

    NIB-SI/Nuclei-segmentation’s past year of commit activity
    MATLAB 0 0 0 0 Updated Nov 17, 2025
  • syntelogfinder Public

    Nextflow pipeline to find syntelogous genes in phased genome assemblies of polyploid plants

    NIB-SI/syntelogfinder’s past year of commit activity
    Nextflow 2 0 0 0 Updated Nov 17, 2025
  • HCS-proc Public

    Data processing pipeline for High-Content Screening using CellProfiler data.

    NIB-SI/HCS-proc’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 13, 2025
  • pISA-tree Public

    pISA-tree: Standard project directory tree ( ISA framework compliant )

    NIB-SI/pISA-tree’s past year of commit activity
    Batchfile 7 MIT 3 6 (1 issue needs help) 0 Updated Nov 10, 2025
  • SPOZNAJ Public

    SPOZNAJ materials

    NIB-SI/SPOZNAJ’s past year of commit activity
    HTML 0 CC0-1.0 0 0 0 Updated Nov 4, 2025
  • Hyphae_segmentation Public

    Image quality feature extraction, using them for shallow learning to train 2 different classifiers (good vs. bad images; semi-good vs. good image) to separate images into 3 groups. Use group specific parameters to segment and count hyphae.

    NIB-SI/Hyphae_segmentation’s past year of commit activity
    Python 0 MIT 0 0 0 Updated Nov 3, 2025
  • multiOmics-integration Public

    Potato ‘omics data analysis pipelines

    NIB-SI/multiOmics-integration’s past year of commit activity
    HTML 1 MIT 2 0 0 Updated Oct 13, 2025
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