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@KHP-Informatics KCL IoPPN: NIHR BRC-MH Bioinformatics Group

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    133 repositories

    • fs2

      Public
      Python
      •1•1•0•0•Updated Dec 17, 2024Dec 17, 2024

    • DNAscanv2

      Public
      DNAscan2 is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring very little computational effort and memory usage
      HTML
      •
      MIT License
      •4•14•0•0•Updated May 7, 2024May 7, 2024

    • NGS_Workshop_Advanced_Bioinformatics

      Public
      8•11•0•0•Updated Mar 12, 2024Mar 12, 2024

    • GEOexplorer

      Public
      R
      •3•2•0•0•Updated Oct 11, 2023Oct 11, 2023

    • COPILOT

      Public
      a Containerised wOrkflow for Processing IllumiNa Genotyping microarray data
      HTML
      •1•0•0•0•Updated Jul 17, 2023Jul 17, 2023

    • vision

      Public
      Code for the VISION project (violence, health and society)
      Jupyter Notebook
      •
      Apache License 2.0
      •1•0•0•1•Updated Apr 24, 2023Apr 24, 2023

    • restar

      Public
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •1•0•0•0•Updated Apr 24, 2023Apr 24, 2023

    • HierarchicalClusteringALS

      Public
      Code used to replicate the clustering, cell composition and phenotype analysis in the hierarchical clustering paper.
      R
      •
      MIT License
      •1•0•0•0•Updated Apr 14, 2023Apr 14, 2023

    • COLOC-reporter_supplementary_materials

      Public
      0•0•0•0•Updated Apr 11, 2023Apr 11, 2023

    • NLP-embedding-visualisation

      Public
      HTML
      •1•2•0•0•Updated Jan 23, 2023Jan 23, 2023

    • tools_assessment_hervk_SR-WGS

      Public
      Shell
      •2•1•0•0•Updated Dec 3, 2022Dec 3, 2022

    • RetroSnake

      Public
      Python
      •1•2•0•0•Updated Sep 5, 2022Sep 5, 2022

    • DNAscanv2_snakemake

      Public
      DNAscan2 is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring very little computational effort and memory usage. This is the Snakemake version which is of benefit for those in HPC environments wanting to execute DNAscan2 in a parallel fashion.
      Python
      •
      MIT License
      •1•0•0•0•Updated Mar 25, 2022Mar 25, 2022

    • DNAscan

      Public
      DNAscan is a fast and efficient bioinformatics pipeline that allows for the analysis of DNA Next Generation sequencing data, requiring very little computational effort and memory usage.
      workflowpipelinengsnext-generation-sequencing
      HTML
      •
      MIT License
      •22•43•3•4•Updated Feb 9, 2022Feb 9, 2022

    • ALSgeneScanner

      Public
      1•6•1•0•Updated Jun 1, 2021Jun 1, 2021

    • DGLinker-validation

      Public
      Validation for the DGLinker webserver
      Jupyter Notebook
      •
      GNU General Public License v3.0
      •0•3•0•0•Updated Mar 4, 2021Mar 4, 2021

    • ADR-graph

      Public
      Predicting adverse drug reactions from a knowledge graph
      Python
      •
      GNU General Public License v3.0
      •14•27•6•0•Updated Feb 26, 2021Feb 26, 2021

    • ALSMetaAnalysis2020

      Public
      This is the repository with the material from 2020 ALS GWAS
      0•1•0•0•Updated Dec 17, 2020Dec 17, 2020

    • MIMIC-Vital-Extraction-SQL

      Public
      Extracting all vitals, labs, comorbidities and ventillation info from MIMIC-III
      0•0•0•0•Updated Jan 26, 2020Jan 26, 2020

    • sepsis

      Public
      Sepsis
      TSQL
      •2•0•0•0•Updated Sep 24, 2019Sep 24, 2019

    • sleepsight-analytics-pipeline

      Public
      Pipeline for processing data from sleepsight wearables
      R
      •
      Apache License 2.0
      •2•0•0•0•Updated Sep 6, 2019Sep 6, 2019

    • brc-gate-applications

      Public
      GATE applications used by the BRC on CRIS data
      Jupyter Notebook
      •3•0•0•0•Updated Jun 14, 2019Jun 14, 2019

    • brc-gate-pharmacotherapy

      Public
      Pharmacotherapy GATE application used by the BRC on CRIS text
      Java
      •
      Other
      •0•0•1•0•Updated Feb 20, 2019Feb 20, 2019

    • patient-flow-simulator

      Public
      Manage a simulated hospital to understand patient flow bottlenecks
      JavaScript
      •
      Apache License 2.0
      •3•14•0•0•Updated Nov 9, 2018Nov 9, 2018

    • CellProfiler

      Public
      An open-source application for biological image analysis
      Python
      •
      Other
      •381•0•0•0•Updated Oct 17, 2018Oct 17, 2018

    • cris.feeder

      Public
      Feeding Gate GCP with CRIS data streaming from SQL database
      Java
      •1•1•0•0•Updated Jul 23, 2018Jul 23, 2018

    • RADAR-scripts

      Public
      Scripts for use with data collected by RADAR
      Python
      •0•1•0•0•Updated May 24, 2018May 24, 2018

    • brc-gate-apps

      Public
      0•0•0•0•Updated Apr 16, 2018Apr 16, 2018

    • brc-gate-LBD

      Public
      0•0•0•0•Updated Apr 16, 2018Apr 16, 2018

    • MND-DataManagementAnalysis-System

      Public
      Main repository of our data management and analysis system for ALS research
      JavaScript
      •1•3•3•0•Updated Apr 9, 2018Apr 9, 2018