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@bioinfo-pf-curie Institut Curie, Bioinformatics Core Facility

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    45 repositories

    • proteinfold

      Public
      Prediction of protein 3D structure
      Nextflow
      •
      Other
      •0•0•0•0•Updated Jan 24, 2025Jan 24, 2025

    • proteinfold-containers

      Public
      Dockerfile
      •
      GNU General Public License v3.0
      •0•0•1•0•Updated Jan 23, 2025Jan 23, 2025

    • scEpigenome

      Public
      Processing of single-cell epigenomic data
      Python
      •
      Other
      •0•0•0•0•Updated Jan 21, 2025Jan 21, 2025

    • biogitflow

      Public
      Development worklow protocols for bioinformatics pipelines with git and gitlab
      HTML
      •
      Other
      •0•0•2•0•Updated Jan 16, 2025Jan 16, 2025

    • geniac-demo

      Public
      This is a demo pipeline with the best practises for the development of bioinformatics analysis pipelines with nextflow and geniac (Automatic Configuration GENerator and Installer for nextflow pipeline).
      C
      •
      Other
      •1•0•0•0•Updated Jan 10, 2025Jan 10, 2025

    • geniac

      Public
      Automatic Configuration GENerator and Installer for nextflow pipeline. This is a set of utilities to implement the best practises for the development of bioinformatics analysis pipelines with nextflow
      Python
      •
      Other
      •4•8•0•0•Updated Jan 10, 2025Jan 10, 2025

    • scRNA-SmartSeq3

      Public
      Smartseq3 single-cell RNAseq data analysis.
      Nextflow
      •
      Other
      •0•1•0•0•Updated Dec 3, 2024Dec 3, 2024

    • RNA-seq

      Public
      Nextflow pipeline for RNA-seq pre-analysis (quality controls, genes/isoforms expression, isoform de-novo identification)
      HTML
      •
      Other
      •3•6•1•0•Updated Oct 23, 2024Oct 23, 2024

    • multiplex-imaging-analysis

      Public
      Processing of multiplex imaging data based on multiple technologies (ORION, CODEX, etc.)
      Python
      •
      Other
      •0•0•0•0•Updated Oct 15, 2024Oct 15, 2024

    • TMB

      Public
      Tumor Mutational Burden
      Python
      •
      Other
      •16•56•18•0•Updated Aug 29, 2024Aug 29, 2024

    • vegan

      Public
      Variant calling pipeline for whole Exome and whole Genome sequencing cANcer data
      Nextflow
      •
      Other
      •0•1•0•0•Updated Aug 29, 2024Aug 29, 2024

    • ChIP-seq

      Public
      Nextflow pipeline for ChIP-seq data quality controls and analysis
      HTML
      •
      Other
      •9•4•2•0•Updated Jun 24, 2024Jun 24, 2024

    • nf-neoant

      Public
      Detection of neoantigens from WES and RNA sequencing data
      Python
      •
      Other
      •0•1•0•0•Updated Jun 19, 2024Jun 19, 2024

    • mpiMarkDup

      Public
      mpiparallel-computingngs-analysismarking-duplicates
      C
      •
      Other
      •1•1•6•0•Updated Mar 15, 2024Mar 15, 2024

    • scChIP-inDrop

      Public
      inDrop single-cell ChIPseq data analysis
      Other
      •0•0•0•0•Updated Jan 17, 2024Jan 17, 2024

    • 4geniac

      Public
      Docker containers for geniac
      Shell
      •0•0•2•0•Updated Dec 6, 2023Dec 6, 2023

    • trainings

      Public
      Ressources for Boinformatics Trainings
      7•8•0•0•Updated Nov 20, 2023Nov 20, 2023

    • mpiBWA

      Public
      parallelmpialignmentthreadsbwa-memmpirun
      C
      •
      Other
      •2•5•3•0•Updated Oct 27, 2023Oct 27, 2023

    • nf-CRISPR

      Public
      Nextflow pipeline for CRISPR screen processing
      Nextflow
      •
      Other
      •0•1•0•0•Updated Sep 14, 2023Sep 14, 2023

    • geniac-template

      Public
      This is a template to pipeline with the best practises for the development of bioinformatics analysis pipelines with nextflow and geniac (Automatic Configuration GENerator and Installer for nextflow pipeline).
      Nextflow
      •
      Other
      •0•2•1•0•Updated Sep 8, 2023Sep 8, 2023

    • geniac-demo-dsl2

      Public
      This is a demo pipeline with the best practises for the development of bioinformatics analysis pipelines with nextflow DSL2 and geniac (Automatic Configuration GENerator and Installer for nextflow pipeline).
      Nextflow
      •
      Other
      •1•1•0•0•Updated Aug 14, 2023Aug 14, 2023

    • mpiSORT

      Public
      samparallelmpisorting-algorithm
      C
      •
      Other
      •2•4•9•0•Updated Jul 20, 2023Jul 20, 2023

    • nf-VIF

      Public
      A Nextflow-based Virus Insertion Finder
      Python
      •
      Other
      •5•5•5•1•Updated Jul 6, 2023Jul 6, 2023

    • bioinfo-pf-curie.github.io

      Public
      HTML
      •0•0•0•4•Updated Apr 12, 2023Apr 12, 2023

    • MDMmetals

      Public
      Data analysis from Solier et al.
      R
      •0•0•0•0•Updated Mar 6, 2023Mar 6, 2023

    • ATAC-seq

      Public
      Nextflow pipeline for ATAC-seq data analysis
      HTML
      •
      Other
      •1•2•0•0•Updated Jan 27, 2023Jan 27, 2023

    • annotationMaker

      Public
      Build indexes and annotation files for Nextflow pipelines
      Groovy
      •
      Other
      •2•1•1•0•Updated Jan 12, 2023Jan 12, 2023

    • PacBioRunQC

      Public
      Python
      •
      Other
      •0•0•0•0•Updated Oct 11, 2022Oct 11, 2022

    • raw-qc

      Public
      Nextflow pipeline for quality controls and trimming of raw sequencing data
      HTML
      •
      Other
      •4•2•0•0•Updated Oct 4, 2022Oct 4, 2022

    • clip-seq

      Public
      This pipeline was set up to process CLIP-seq data from aligned sequencing reads. It includes two parts: i/the reads processing (cleaning, mapping, peak calling) and the differential analysis.
      Shell
      •0•0•0•0•Updated Apr 20, 2022Apr 20, 2022