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InternScience / GraphGen Public

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feat: Add DNA and RNA search functionality#105

Merged

ChenZiHong-Gavin merged 26 commits intoInternScience:mainInternScience/GraphGen:mainfrom

CHERRY-ui8:feat/add-dna-rna-searchCHERRY-ui8/GraphGen:feat/add-dna-rna-searchCopy head branch name to clipboard

Dec 1, 2025

Conversation Commits26 (26)Checks Files changed

Merged

feat: Add DNA and RNA search functionality#105
ChenZiHong-Gavin merged 26 commits intoInternScience:mainfrom
CHERRY-ui8:feat/add-dna-rna-search

Commits

Commits on Nov 26, 2025

feat: Add DNA and RNA search functionality
CHERRY-ui8
committed
Merge branch 'open-sciencelab:main' into feat/add-dna-rna-search
CHERRY-ui8
authored
fix: fix pylint style issues
CHERRY-ui8
committed
Merge branch 'feat/add-dna-rna-search' of github.com:CHERRY-ui8/GraphGen into feat/add-dna-rna-search
CHERRY-ui8
committed
refactor: unify searcher interfaces and improve error handling
CHERRY-ui8
committed
Add UniProt IDs to search_protein_demo.jsonl
CHERRY-ui8
committed

Commits on Nov 27, 2025

add: add UniProt IDs to search_protein_demo.jsonl
CHERRY-ui8
committed
feat: unify search interfaces to use gene ID as unified data source
CHERRY-ui8
committed
add: an gene id example in DNA demo
CHERRY-ui8
committed
feat: unify search interfaces to use RNA id as unified data source
CHERRY-ui8
committed
Merge branch 'feat/add-dna-rna-search' of github.com:CHERRY-ui8/GraphGen into feat/add-dna-rna-search
CHERRY-ui8
committed
fix: fix pylint style issues
CHERRY-ui8
committed
fix: reduce nested blocks and fix all pylint issues
CHERRY-ui8
committed

Commits on Nov 29, 2025

feat: add DNA RNA local blast
CHERRY-ui8
committed
style: reduce return statements and branches in searcher methods
CHERRY-ui8
committed

Commits on Nov 30, 2025

perf: optimize code style and search efficiency
ChenZiHong-Gavin
committed
fix: fix import error
ChenZiHong-Gavin
committed
fix: delete rate_limiter
ChenZiHong-Gavin
committed
perf: simplify RNA searcher and align with DNA searcher logic
CHERRY-ui8
committed

Commits on Dec 1, 2025

fix: fix search params in get_best_hit
ChenZiHong-Gavin
committed
perf: optimize search logic in rnacentral_searcher
ChenZiHong-Gavin
committed
perf: optimize search logic in rnacentral_searcher
ChenZiHong-Gavin
committed
perf: optimize code style
ChenZiHong-Gavin
committed
fix: fix lint problems
ChenZiHong-Gavin
committed
fix: search setup problems
CHERRY-ui8
committed
feat: more examples in search demo
CHERRY-ui8
committed

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