ashm97 / crowdsourceui Goto Github PK
View Code? Open in Web Editor NEWCrowd source Search engine Results UI
Crowd source Search engine Results UI
#################################################################################################### ## ## Project: Omics Shiny Search Results Application ## Script purpose: Description of Project Code ## Date: 03.09.2018 ## Author: Ashleigh Myall ## #################################################################################################### #---- Description ----# The application is for a web based, interactive visualisation of the results for peptide search engines in the shotgun proteomics pipeline, focusing compatibility with the crowdsourcing distributed engine output and mzIdentML file formats. #---- Installation ----# For offline usage unpack all the files into a directory. Open R studio, set the working directory and source from Global.R after installing the packages called inside the Global.R script. #---- Usage ----# For general use navigate to the Data page first. Upload a file which meets the format requirements (.csv .mzid .gz) containing peptide search results (Note: Include a column labeled sequence or peptide). You may view the uploaded peptide dataframe in the table on the same page. From this page also the decoy term can be set, which is taken from the accession column if no isDecoy column is already present. A drop down menu for score column selection also allows the user to specify what to be used as a scoring metric (Note: for mzIdentML files the whole scoring dataframe is binded to the peptide list). The application also allows for passing the URL of a csv. This has been developed to specifically interface with the results from the crowdsource. And such is takes /?id=num. Where num is the number in the URL of the directory result from our crowdsource developers file URL. This URL also directs the application to a location for server data. Which is used for plotting points on the leaflet map and user statistics calculations on the homepage. Visualisations are done in a mixture of shiny and ggplot. Many offer interactivity such as zooming and mouse over information. Also query creators are placed next to some plots which can be used to change displays. #---- Structure ----# Split across multiple scripts the code accesses functions which has been located by category. The application makes use of module in a large part. All modules are placed in the module script (both UI and server Modules). Each page has a UI module and Server module. Which within can call other inner modules for other displays like plots. The UI is split across multiple scripts. With UI.R at the highest level holding the tabs to display. Then body.R which UI.R access, then the tab.R script, which calls the UI module for each tab. Much of the script revolves around the data page module which returns the data in the global environment for the server to access and display plots for. #---- Credits ----# Ashleigh Myall - R coding Andy Jones - Project Supervisor Andrew Collins - crowdsource search engine software developer ####################################################################################################
A declarative, efficient, and flexible JavaScript library for building user interfaces.
๐ Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
An Open Source Machine Learning Framework for Everyone
The Web framework for perfectionists with deadlines.
A PHP framework for web artisans
Bring data to life with SVG, Canvas and HTML. ๐๐๐
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
Some thing interesting about web. New door for the world.
A server is a program made to process requests and deliver data to clients.
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Some thing interesting about visualization, use data art
Some thing interesting about game, make everyone happy.
We are working to build community through open source technology. NB: members must have two-factor auth.
Open source projects and samples from Microsoft.
Google โค๏ธ Open Source for everyone.
Alibaba Open Source for everyone
Data-Driven Documents codes.
China tencent open source team.