[BIOMAGE-1494] - Add prefiltered flag to classifier

[aerlaut]

Background

Link to issue

https://biomage.atlassian.net/browse/BIOMAGE-1494

Link to staging deployment URL

In UI PR

Links to any Pull Requests related to this

UI - hms-dbmi-cellenics/ui#528
API - hms-dbmi-cellenics/api#242
Pipeline - #178
IAC Migration - hms-dbmi-cellenics/iac#191

Anything else the reviewers should know about the changes here

Changes

Code changes

• Add prefiltered

Definition of DONE

Your changes will be ready for merging after each of the steps below have been completed:

Testing

• Unit tests written
• Tested locally with Inframock (with latest production data downloaded with biomage experiment pull)
• Deployed to staging
• Passed integration tests

To set up easy local testing with inframock, follow the instructions here: https://github.com/biomage-ltd/inframock
To deploy to the staging environment, follow the instructions here: https://github.com/biomage-ltd/biomage-utils

Documentation updates

Is all relevant documentation updated to reflect the proposed changes in this PR?

• Relevant Github READMEs updated
• Relevant wiki pages created/updated

Approvers

• Approved by a member of the core engineering team
• (UX changes) Approved by vickymorrison (this is her username, tag her if you need approval)

Just before merging:

• After the PR is approved, the unstage script in here: https://github.com/biomage-ltd/biomage-utils is executed. This script cleans up your deployment to staging

Optional

• Photo of a cute animal attached to this PR

[codecov]

Codecov Report

Merging #178 (0728317) into master (d1d1ed1) will increase coverage by 0.03%.
The diff coverage is 100.00%.

@@            Coverage Diff             @@
##           master     #178      +/-   ##
==========================================
+ Coverage   56.72%   56.76%   +0.03%     
==========================================
  Files          19       19              
  Lines        1234     1235       +1     
==========================================
+ Hits          700      701       +1     
  Misses        534      534              

Impacted Files	Coverage Δ
pipeline-runner/R/gem2s-6-construct_qc_config.R	100.00% <100.00%> (ø)

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