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@cnio-bu CNIO Bioinformatics Unit

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    Repositories list

    24 repositories

    • tcca

      Public
      A repository holding the code for the generation of a therapeutic cancer cell atlas
      R
      •
      MIT License
      •0•2•0•0•Updated Aug 28, 2026Aug 28, 2026

    • website

      Public
      SCSS
      •
      Other
      •9•0•1•0•Updated Aug 28, 2026Aug 28, 2026

    • cnio-bu.github.io

      Public
      Source code for generating https://cnio-bu.github.io
      2•2•2•0•Updated Aug 19, 2026Aug 19, 2026

    • basecalling_ont

      Public
      Snakemake workflow for Oxford Nanopore basecalling with Dorado and quality control.
      long-readsont
      long-readsont
      Python
      •1•0•0•0•Updated Jul 6, 2026Jul 6, 2026

    • myeloma-epi-sv

      Public
      Python
      •
      MIT License
      •1•2•1•0•Updated Jun 30, 2026Jun 30, 2026

    • drug_susceptibility_collection

      Public
      A snakemake pipeline to generate the transcriptomic signatures of drug susceptibility used in beyondcell
      R
      •5•1•0•0•Updated Mar 13, 2026Mar 13, 2026

    • cluster_rnaseq

      Public
      Python
      •14•5•8•2•Updated Nov 18, 2025Nov 18, 2025

    • czi-convert

      Public
      Python
      •0•0•0•0•Updated Oct 31, 2025Oct 31, 2025

    • ST-preprocess

      Public
      Pipelines to preprocess 10x Visium data, including spot filtering and deconvolution, normalization and beyondcell score calculation.
      R
      •
      MIT License
      •1•2•0•0•Updated Nov 29, 2024Nov 29, 2024

    • breast-bcspatial

      Public
      Code used to produce the final figures and tables of the study "Spatial Transcriptomics in Breast Cancer Reveals Tumour Microenvironment-Driven Drug Responses a…
      R
      •1•1•0•0•Updated Nov 29, 2024Nov 29, 2024

    • beyondcell

      Public
      Beyondcell is a computational methodology for identifying tumour cell subpopulations with distinct drug responses in single-cell RNA-seq and Spatial Transcripto…
      bioinformaticscancerdrugs
      bioinformaticscancerdrugssingle-cellspatial-transcriptomics
      R
      •
      Other
      •7•62•16•2•Updated Sep 17, 2024Sep 17, 2024

    • pandrugs-db

      Public
      Perl
      •2•5•2•0•Updated Jun 14, 2024Jun 14, 2024

    • varca

      Public
      Python
      •
      MIT License
      •13•0•2•4•Updated Apr 16, 2024Apr 16, 2024

    • SSc-breast

      Public
      A snakemake pipeline to generate the transcriptomic signatures of breast cancer drug susceptibility used in "Spatial Transcriptomics in Breast Cancer Reveals Tu…
      R
      •5•0•0•0•Updated Feb 12, 2024Feb 12, 2024

    • myelong

      Public
      Python
      •0•0•0•0•Updated Jun 20, 2023Jun 20, 2023

    • protter

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Jun 2, 2023Jun 2, 2023

    • bollito

      Public
      A single-cell RNA-seq pipeline
      R
      •
      MIT License
      •15•28•10•1•Updated Apr 12, 2023Apr 12, 2023

    • bu-website-merge_fork

      Public
      SCSS
      •
      Other
      •9•0•0•0•Updated Mar 29, 2023Mar 29, 2023

    • Gotcha

      Public
      Pipeline for processing of GoT-ChA genotyping data and downstream analysis
      R
      •
      GNU General Public License v3.0
      •8•0•0•0•Updated Mar 15, 2023Mar 15, 2023

    • ngs-test-data

      Public
      Python
      •0•0•0•0•Updated Feb 23, 2023Feb 23, 2023

    • sc-test-data

      Public
      Python
      •0•0•0•0•Updated Feb 21, 2023Feb 21, 2023

    • vulcanspot-ui

      Public
      JavaScript
      •
      Other
      •0•0•0•0•Updated Jun 1, 2022Jun 1, 2022

    • vulcanspot_ui

      Public
      0•0•0•0•Updated Jun 1, 2022Jun 1, 2022

    • vulcanspot

      Public
      R
      •
      Other
      •0•2•0•0•Updated Jun 1, 2022Jun 1, 2022
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