Name: 2016_project_2
Owner: hackseq
Description: Design a tool to optimize the parameters of any command line tool
Created: 2016-08-31 22:51:47.0
Updated: 2017-09-06 20:45:26.0
Pushed: 2017-09-06 20:45:25.0
Homepage: null
Size: 32664
Language: HTML
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Project Lead: Shaun Jackman / @sjackman / Graduate Student / BC Cancer Agency Genome Sciences Centre
Given a command line tool with a number of parameters and a target metric to be optimized, I want a tool that will run the program and find the values for those parameters that maximizes some target metric. My particular use case is genome sequence assembly, which often has a variety of parameters related to expected coverage of the reads and heuristics to remove read errors and collapse heterozygous variation. When I tackle that optimization, the process is manual and tedious: submitting jobs to a scheduler, rerunning failed jobs, inspecting outputs, tweaking parameters, and repeating. I want to design and implement a tool to automate that process and generate a report of the result.
