KHP-Informatics/ALSMetaAnalysis2020

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KHP-Informatics/ALSMetaAnalysis2020

KHP-Informatics

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This is the repository with the material from 2020 ALS GWAS

ngseasy

Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)

DNAscan

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.

ADR-graph

Predicting adverse drug reactions from a knowledge graph

bioindocker15

[Bio in Docker] Symposium 2015

illumina-array-protocols

processing illumina SNP arrays

redcap-docker

Dockerfile for building REDCap a secure web application for building and managing online surveys and databases. http://www.project-redcap.org/

patient-flow-simulator

Manage a simulated hospital to understand patient flow bottlenecks

NGS_Workshop_Advanced_Bioinformatics

PRSice

PRSice (pronounced 'precise') is a software package for calculating, applying, evaluating and plotting the results of polygenic risk scores

ALSgeneScanner

Cognition-DNC

release machine readable text from word documents, images and other files, and de-identify

HipDynamicsR

HipDynamics is a data analytics middleware that allows you to slice multi-dimensional data sets according to a pre-defined context.

ADRApp

MND-DataManagementAnalysis-System

Main repository of our data management and analysis system for ALS research

surpi_container

SURPI Dockerfile:computational pipeline for pathogen identification from complex metagenomic next-generation sequencing (NGS) data generated from clinical samples

DockerEcosystem

A running list of Docker tools

hackhour

Files for each hackhour topic... fork, beer, pizza

Jupyter Notebook

DGLinker-validation

Validation for the DGLinker webserver

Jupyter Notebook

HipDynamics

chip_gx

Illumina Chip based Gene Expression Pipeline (QC, Normalization, Differential Expression)

osticket-docker

httpd-php7-ssl-docker

extending the base httpd server with php7 and openssl

k8sworkflow

Workflows ontop of Kubernettes

NLP-embedding-visualisation

RetroSnake

RADAR-platform

The repository for work on the RADAR platform, a scalable, generic data harvesting pipeline for harvesting data from mobile phone sensors, IoT/Wearable devices etc. Remote Assessment of Disease and Relapse (RADAR) project. RADAR is a 22 million (11M European Funding and matched funding from EFPIA partners) European FP-7 initiative to pioneer mHealth remote monitoring capabilities in 3 key neurological disease areas: Depression, MS and Epilepsy.

clozapine_adr_stats

statistical model analysis for clozapine adverse reaction prediction

Jupyter Notebook

RADAR-scripts

Scripts for use with data collected by RADAR

sleepsight-analytics

Analysis pipeline of the SleepSight pilot study.

radar-ingestion-platform

question_app

SDQ

Multi-agent clinical trial generator for ADHD Patients. Uses Healthvault

bayesian-logistic-regression-r-shiny-app

This repository contains a GUI written in Rshiny to perform Bayesian Logistic regression analysis in R. The interface is based on the MCMClogit function from the MCMCpack package.

bc-genetics

Workflows and tools for standard Genomic & Transcriptomic Analysis (SNP and Expression Arrays)