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Day 2 Morning #50

Open
5 of 10 tasks
alipirani88 opened this issue Feb 14, 2019 · 0 comments
Open
5 of 10 tasks

Day 2 Morning #50

alipirani88 opened this issue Feb 14, 2019 · 0 comments
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data enhancement

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@alipirani88
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alipirani88 commented Feb 14, 2019 •
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  • - Find MRSA vs MSSA dataset from lab dataset or public dataset that can be compared to visualize large insertions between the assemblies. Downloaded/Processing
  • - Run through MRSA/MSSA comparison to verify that things run smoothly (STEPHANIE)
  • - Run through VRE/VSE comparison to verify that things run smoothly (Evan)
  • - Add Plasmid typer tool run to type plasmids to visualize if the insertion is on plamsid or chrmosome, explore manual.
  • - Pick plasmid tool and verify that manual is easy to understand and tool is easy to run. test between mob-suite and plascope
  • - Get rid of mapping back reads to assembly to show deletion and coverage.
  • - Loading Prokka annotation files in ACT.
  • - Change the flow of analysis. Assembly - Abacas - ACT - plasmid typing - Prokka
  • - Add Prokka unix challenges to explore various annotation files
  • - Remove the sections from read mapping to assembly (Ali)
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