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@pgxcentre Beaulieu-Saucier Université de Montréal Pharmacogenomics Centre

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    26 repositories

    • pyGenClean-PGx

      Public
      Automated genetic data clean up procedure in Python for the PGx Centre.
      Python
      •
      GNU General Public License v3.0
      •2•0•0•0•Updated Sep 30, 2024Sep 30, 2024

    • COLCOT-CH-scripts

      Public
      CHIP COLCOT sequencing data and variant calls processing scripts
      Python
      •
      GNU General Public License v3.0
      •0•0•0•0•Updated Sep 20, 2024Sep 20, 2024

    • genipe

      Public
      Genome-wide imputation pipeline
      bioinformaticsgenomicsgenetics
      Python
      •
      GNU General Public License v3.0
      •7•31•7•0•Updated Jul 30, 2024Jul 30, 2024

    • UKBPheWAS

      Public
      Python
      •1•0•0•0•Updated Sep 18, 2023Sep 18, 2023

    • geneparse

      Public
      Clean interface to parse genotype files
      bioinformaticsgenomicsgenetics
      Python
      •
      MIT License
      •2•5•4•0•Updated Aug 28, 2023Aug 28, 2023

    • region-plot

      Public
      A tool to plot significant regions of GWAS
      bioinformaticsgenomicsgeneticsplot
      Python
      •
      Other
      •5•29•4•0•Updated Jan 27, 2023Jan 27, 2023

    • miami_generator

      Public
      A python tool to create beautiful Miami plots
      Python
      •
      MIT License
      •1•0•0•0•Updated Jan 25, 2023Jan 25, 2023

    • ExPheWAS

      Public
      Browser for the results of a gene-PC based pheWAS in the UK Biobank
      Jupyter Notebook
      •
      MIT License
      •0•5•3•0•Updated Jun 8, 2022Jun 8, 2022

    • genetest

      Public
      Python package for efficient genetic association analyses
      bioinformaticsgwasstatisticsgenomicsgeneticsregression-modelsphewas
      Python
      •
      Other
      •2•3•9•0•Updated Oct 21, 2021Oct 21, 2021

    • pheweb

      Public
      A tool to build multi-phenotype GWAS browsers
      Python
      •
      GNU Affero General Public License v3.0
      •67•0•0•0•Updated Feb 12, 2021Feb 12, 2021

    • manhattan_generator

      Public
      Manhattan plot Generator
      bioinformaticsgenomicsgeneticsplot
      Python
      •
      Other
      •8•24•1•1•Updated Jun 1, 2020Jun 1, 2020

    • fastglm

      Public
      Fast glm fitting via RcppEigen
      C++
      •15•0•0•0•Updated May 21, 2019May 21, 2019

    • beelinetools

      Public
      Beeline report toolkit
      Python
      •
      MIT License
      •0•1•1•0•Updated Oct 9, 2018Oct 9, 2018

    • statgen.org

      Public
      StatGen website
      TeX
      •0•0•0•0•Updated Feb 7, 2018Feb 7, 2018

    • spark-sge

      Public
      Python
      •0•1•0•0•Updated Nov 3, 2017Nov 3, 2017

    • vcf2tped

      Public
      Convert a VCF to multiple TPEDs
      Python
      •
      MIT License
      •0•1•0•0•Updated Jan 12, 2017Jan 12, 2017

    • pgxsimulation

      Public
      0•0•0•0•Updated Oct 24, 2016Oct 24, 2016

    • metaskat_pipeline

      Public
      An automatic pipeline for a MetaSKAT analysis
      Python
      •0•0•0•0•Updated Feb 5, 2016Feb 5, 2016

    • qqplot

      Public
      Tool to generate QQ plots.
      Python
      •0•0•1•0•Updated Feb 4, 2016Feb 4, 2016

    • lambda

      Public
      A python script to compute genomic inflation factor
      Python
      •3•2•0•0•Updated Jan 26, 2016Jan 26, 2016

    • pgx_dnaseq

      Public
      Automatic DNA sequencing pipeline
      Python
      •
      Other
      •0•1•0•0•Updated Apr 7, 2015Apr 7, 2015

    • ref_finder

      Public
      Finds the reference (and alternative) allele in the reference genome
      Python
      •
      MIT License
      •0•1•0•0•Updated Feb 18, 2015Feb 18, 2015

    • variant_aware_fasta

      Public
      Generate variant aware fasta files.
      Python
      •
      MIT License
      •0•1•0•0•Updated Feb 11, 2015Feb 11, 2015

    • pymegablast

      Public
      A python wrapper for megablast
      Python
      •
      GNU General Public License v3.0
      •1•1•0•0•Updated Jan 23, 2015Jan 23, 2015

    • aa2snp

      Public
      Converts amino acid changes to SNPs (without warranty)
      Python
      •0•1•0•0•Updated Oct 24, 2014Oct 24, 2014

    • eventhub

      Public
      General purpose RESTful event processing service
      Scala
      •
      Apache License 2.0
      •0•2•3•0•Updated Jul 23, 2014Jul 23, 2014