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@bbglab BBGLab - Barcelona Biomedical Genomics Lab

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    30 repositories

    • openvariant

      Public
      Read, parse and operate different multiple input file formats with OpenVariant
      bioinformaticsopenvariantbbglabopenvarpython
      Python
      •
      BSD 3-Clause "New" or "Revised" License
      •3•12•0•0•Updated Apr 17, 2025Apr 17, 2025

    • qmap

      Public
      A tool to run a collection of similar jobs quickly and easily in parallel. It can run standalone or using different HPC schedulers (Slurm, Sun Grid Engine...)
      Python
      •
      Other
      •0•0•2•1•Updated Apr 15, 2025Apr 15, 2025

    • cancer-detective-pro

      Public
      Cancer Detective activity
      JavaScript
      •0•0•14•0•Updated Apr 9, 2025Apr 9, 2025

    • oncodrive3d_paper

      Public
      Analysis performed for the publication of Oncodrive3D.
      Jupyter Notebook
      •0•0•0•0•Updated Apr 7, 2025Apr 7, 2025

    • containers

      Public
      Dockerfile
      •1•0•0•0•Updated Mar 28, 2025Mar 28, 2025

    • randomize-mutations

      Public
      Utils for simple mutation randomization based on trinucleotide context specific mutation rate
      Jupyter Notebook
      •0•0•0•0•Updated Mar 20, 2025Mar 20, 2025

    • bbgwiki

      Public
      Website with info of all the tools and data used in the bbglab
      HTML
      •2•2•47•3•Updated Mar 20, 2025Mar 20, 2025

    • boostdm-pipeline

      Public
      Learning pipeline to identify somatic SNVs under positive selection.
      Python
      •
      Other
      •0•3•12•0•Updated Feb 11, 2025Feb 11, 2025

    • oncodrive3d

      Public
      A computational approach for identifying cancer driver genes by detecting three-dimensional clusters of somatic missense mutations in protein structures.
      Python
      •
      Other
      •0•1•8•0•Updated Jan 28, 2025Jan 28, 2025

    • oncodrivefml

      Public
      Python
      •
      Other
      •1•3•8•0•Updated Jan 25, 2025Jan 25, 2025

    • boostdm-analyses

      Public
      Source code to reproduce the figures of the boostDM paper
      mutationsdriverscancer-genes
      Jupyter Notebook
      •
      MIT License
      •3•6•0•0•Updated Dec 17, 2024Dec 17, 2024

    • oncodriveclustl

      Public
      Python
      •
      Other
      •0•2•4•0•Updated Dec 13, 2024Dec 13, 2024

    • intogen-plus

      Public
      a framework for automatic and comprehensive knowledge extraction based on mutational data from sequenced tumor samples from patients.
      Python
      •
      Other
      •3•2•7•1•Updated Dec 4, 2024Dec 4, 2024

    • boostdm-ch-analysis

      Public
      Jupyter Notebook
      •0•3•0•0•Updated Aug 30, 2024Aug 30, 2024

    • immunebiomarkers

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Aug 13, 2024Aug 13, 2024

    • smregions

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Aug 12, 2024Aug 12, 2024

    • hartwig_biomarkers

      Public
      Jupyter Notebook
      •0•1•0•0•Updated Aug 2, 2024Aug 2, 2024

    • second-tumors-children

      Public
      This repository contains the necessary code to reproduce the analysis of "Origins of Second Malignancies in Children and Mutational Footprint of Chemotherapy in Normal Tissues"
      Jupyter Notebook
      •
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Apr 12, 2024Apr 12, 2024

    • hotspot_propensity

      Public
      Source code to reproduce hotspot propensity analyses and figures
      Jupyter Notebook
      •
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Dec 21, 2023Dec 21, 2023

    • cgi-clinics-api

      Public
      This repository contains python scripts to serve as a guide on how to use the CGI-Clinics API.
      Python
      •0•2•1•0•Updated Sep 28, 2023Sep 28, 2023

    • cancer-detective

      Public
      A simulation to learn about cancer and mutations, based on Cancer Genome Interpreter
      genomicsgenomecancer-genomicscancer-research
      Jupyter Notebook
      •
      Other
      •0•1•0•0•Updated May 3, 2023May 3, 2023

    • adventofcode

      Public
      Advent of Code
      Jupyter Notebook
      •
      MIT License
      •0•0•0•1•Updated Dec 1, 2022Dec 1, 2022

    • ch-drivers

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•1•0•0•Updated May 5, 2022May 5, 2022

    • sars-cov-2-genomics

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Nov 24, 2020Nov 24, 2020

    • evolution_TALL_adults

      Public
      The evolution of relapse of adult T-cell acute lymphoblastic leukemia
      Jupyter Notebook
      •
      Other
      •1•0•0•0•Updated Oct 23, 2020Oct 23, 2020

    • transvar

      Public
      A fork of TransVar at Github
      Python
      •
      Other
      •34•0•0•0•Updated Aug 9, 2018Aug 9, 2018

    • wok

      Public archive
      Python
      •
      GNU General Public License v3.0
      •1•2•0•0•Updated May 17, 2018May 17, 2018

    • muts-needle-plot

      Public
      A needle plot for mutation data
      JavaScript
      •
      Other
      •26•26•6•0•Updated Aug 31, 2017Aug 31, 2017

    • myvariant.info

      Public
      MyVariant.info: A BioThings API for human variant annotations
      Python
      •
      Other
      •32•1•0•0•Updated Jun 29, 2017Jun 29, 2017

    • itab

      Public archive
      Python tab files parsing and validating schema tools.
      Python
      •
      Other
      •0•0•1•0•Updated Apr 22, 2016Apr 22, 2016