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

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    135 repositories

    • ALS_DiseaseCapsule

      Public
      This is the repository with the code used in our implementation of DiseaseCapsule and its application in ALS
      Python
      •
      Other
      •1•0•0•0•Updated Aug 5, 2026Aug 5, 2026

    • ont-benchmark

      Public
      Supporting data for the publication "Investigating the performance of Oxford Nanopore long-read sequencing with respect to Illumina microarrays and short-read s…
      Jupyter Notebook
      •
      MIT License
      •1•1•0•0•Updated May 8, 2025May 8, 2025

    • NGS_Workshop_Advanced_Bioinformatics

      Public
      8•17•0•0•Updated Mar 7, 2025Mar 7, 2025

    • 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 computationa…
      HTML
      •
      MIT License
      •4•14•0•0•Updated May 7, 2024May 7, 2024

    • GEOexplorer

      Public
      R
      •4•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•1•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•3•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 computationa…
      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…
      workflowpipelinengs
      workflowpipelinengsnext-generation-sequencing
      HTML
      •
      MIT License
      •21•44•3•3•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•28•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•18•0•0•Updated Nov 9, 2018Nov 9, 2018

    • CellProfiler

      Public
      An open-source application for biological image analysis
      Python
      •
      Other
      •427•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
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