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Quality assessment module #14

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Takadonet opened this issue Oct 23, 2017 · 0 comments
Closed

Quality assessment module #14

Takadonet opened this issue Oct 23, 2017 · 0 comments
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Create a new module that will evaluate the results that hansel has generated for the following 2 user cases.

  1. Mixed subtypes (inconsistent subtyping results)
  2. Insufficient number of SNV targets found

Mixed subtype would be flagged if more targets are found than the total expected number for the scheme. (both the negative and positive tile for a given site are found) . Try out with 3 or more excess targets tile that were suspicious.

Insufficient number of SNV should be flag if more then 5% of the targets missing based on the scheme. Example for SH scheme that means if less then 180 tiles are missing, flag it out of 188.
mgopez added a commit that referenced this issue Oct 24, 2017
@mgopez
#13: Created new simple output file. Added new argument for the path …
8e5ccf5 
…of the simple output file.

misc, moving variables to const file.

Signed-off-by: Matt <gopezm@myumanitoba.ca>
#14: Adding the quality check module and it's tests.
peterk87 added a commit that referenced this issue Nov 30, 2017
@peterk87
Merge pull request #17 from phac-nml/new_output_feature_requests
5e3484d 
#13, #14: Quality Checking Module & Technician's Output
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@Takadonet @peterk87 @mgopez