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    20 repositories

    • EPIC-ATAC_manuscript

      Public
      Code used for the analyses performed in the EPIC-ATAC manuscript
      R
      •0•1•0•0•Updated Oct 1, 2024Oct 1, 2024

    • EPIC-ATAC

      Public
      R
      •
      Other
      •0•1•0•0•Updated Oct 1, 2024Oct 1, 2024

    • exercises_intro_bioinfo_clinique

      Public
      Jupyter Notebook
      •0•0•0•0•Updated Sep 25, 2024Sep 25, 2024

    • SuperSpot

      Public
      HTML
      •0•0•0•0•Updated Aug 30, 2024Aug 30, 2024

    • SuperCell

      Public
      Coarse-graining of large single-cell RNA-seq data into metacells
      scrna-seq-datacoarse-grainingscrna-seq-analysisr-package
      R
      •
      GNU General Public License v3.0
      •11•65•1•0•Updated Aug 29, 2024Aug 29, 2024

    • MixTCRpred

      Public
      Predictor of TCR-epitope interactions
      Python
      •
      Other
      •5•16•0•0•Updated Aug 27, 2024Aug 27, 2024

    • MetacellAnalysisToolkit

      Public
      Toolkit for metacell analysis
      R
      •2•12•3•0•Updated Aug 8, 2024Aug 8, 2024

    • MixMHCpred

      Public
      HLA-I ligand predictor
      Python
      •
      Other
      •7•26•1•0•Updated May 16, 2024May 16, 2024

    • PRIME

      Public
      PRedictor of IMmunogenic Epitopes
      C++
      •
      Other
      •4•16•1•0•Updated May 16, 2024May 16, 2024

    • MetacellAnalysisTutorial

      Public
      Tutorial on construction and analysis of metacells
      TeX
      •0•6•0•0•Updated Mar 7, 2024Mar 7, 2024

    • MixMHCp

      Public
      Tool for motif deconvolution in large HLA-I ligand datasets
      R
      •
      Other
      •2•8•0•0•Updated Oct 6, 2023Oct 6, 2023

    • EPIC

      Public
      Repository for the R package EPIC, to Estimate the Proportion of Immune and Cancer cells from bulk gene expression data.
      rna-seqcell-typegene-expressionbulk-datacancer-cells
      R
      •
      Other
      •21•74•1•0•Updated Jul 12, 2023Jul 12, 2023

    • MixMHC2pred

      Public
      HLA-II ligand predictor.
      t-cellhlamhc-binding-prediction
      C++
      •
      Other
      •10•34•3•0•Updated Apr 6, 2023Apr 6, 2023

    • MoDec

      Public
      Tool for Motif Deconvolution in large HLA-II ligand datasets without the need of prior alignment.
      mhchladeconvolution
      R
      •
      Other
      •0•11•1•0•Updated Nov 25, 2022Nov 25, 2022

    • SIB_workshop

      Public
      Jupyter Notebook
      •0•5•0•0•Updated Jun 15, 2022Jun 15, 2022

    • ggseqlogo

      Public
      Publication-quality sequence logos in R
      R
      •30•1•0•0•Updated Mar 24, 2022Mar 24, 2022

    • PLDpred

      Public
      Predictions of peptide length distribution for HLA-I molecules
      R
      •0•0•0•0•Updated Oct 1, 2020Oct 1, 2020

    • PhosMHCpred

      Public
      Predictor of Phosphorylated HLA-I ligands
      Python
      •2•5•0•0•Updated Jun 30, 2020Jun 30, 2020

    • MHCpExt

      Public
      Identification of N- and C-terminal extensions in HLA-I ligands
      Perl
      •
      Other
      •2•2•0•0•Updated May 4, 2018May 4, 2018

    • DCApeptides

      Public
      Extension of Direct Coupling Analysis to consider multiple ligands
      C++
      •0•0•0•0•Updated Aug 25, 2017Aug 25, 2017