You are now the owner of this repo.

openvax / topiary
85%
master: 90%

LAST BUILD BRANCH: v5.16.2
DEFAULT BRANCH: master
Repo Added
Files 35
Badge
Embed ▾
README BADGES
x

If you need to use a raster PNG badge, change the '.svg' to '.png' in the link

Markdown

Textile

RDoc

HTML

Rst

LAST BUILD ON BRANCH multi-model-disambiguation
branch: multi-model-disambiguation
CHANGE BRANCH
x

coverage: 85.441% (-0.7%) from 86.166%
24170771911

Pull #97

github

iskandr 
Add multi-model disambiguation for ranking/filtering DSL

When multiple MHC binding predictors produce the same prediction kind
(e.g. both NetMHCpan and MHCflurry produce pMHC_affinity), the ranking
system now supports qualifying expressions by prediction method.

Python API — bracket syntax on KindAccessor:

    Affinity["netmhcpan"] <= 500
    Affinity["mhcflurry"].score
    Affinity["netmhcpan"].norm(500, 200)
    0.5 * Affinity["netmhcpan"] + 0.5 * Affinity["mhcflurry"]

CLI — tool_kind underscore syntax:

    --ranking "netmhcpan_affinity <= 500 | mhcflurry_el.rank <= 2"
    --rank-by "netmhcpan_affinity,mhcflurry_presentation"

All existing short aliases work with tool prefix: netmhcpan_ba,
mhcflurry_el, netmhcpan_aff, etc.

Error handling:
- Unqualified access with multiple models producing the same kind
  raises ValueError listing available methods
- Qualified access with a typo raises ValueError with "Did you mean"
  suggestions via difflib fuzzy matching
- Unqualified access with a single model works without qualification
  (backwards compatible)

Adds 32 new tests including adversarial edge cases for ambiguity
detection, typo suggestions, empty data, missing columns, cross-model
composites, and case-insensitive matching.
Pull Request #97: Multi-model disambiguation for ranking/filtering DSL

95 of 117 new or added lines in 2 files covered. (81.2%)

5 existing lines in 1 file now uncovered.

1162 of 1360 relevant lines covered (85.44%)

2.56 hits per line

Relevant lines Covered
1360 RELEVANT LINES 1162 COVERED LINES
2.56 HITS PER LINE
Source Files on multi-model-disambiguation

Recent builds

Builds Branch Commit Type Ran Committer Via Coverage
24170771911 multi-model-disambiguation Add multi-model disambiguation for ranking/filtering DSL When multiple MHC binding predictors produce the same prediction kind (e.g. both NetMHCpan and MHCflurry produce pMHC_affinity), the ranking system now supports qualifying expressions by pr... Pull #97 iskandr github
85.44
See All Builds (269)