Single-cell: interactive master summary, TCRdist3 + TCRi fixes, GIANA clonotype dedup - #99

Merged

dltamayo merged 13 commits into

v2from

singlecell-master-summary

Sep 17, 2026

Commits on Aug 31, 2026

Single-cell: interactive master summary, TCRdist3 + TCRi fixes, GIANA clonotype dedup
zaidissa
committed
c50f985

Commits on Sep 1, 2026

Cirro: expose single-cell params and warn on a missing patient column
zaidissa
committed
65908f8
Add MERGE_VDJ_OBJECT: merged per-cell TCR object, pre- and post-QC
zaidissa
committed
4fe3630
Potential fix for pull request finding

dltamayo
and
Copilot
authored
2bea78f
Restore script: label in GIANA_CALC, dropped by prior autofix commit

dltamayo
and
claude
committed
9cd2bee
Master Summary: add GIANA / GLIPH2 / TCRdist3 cluster composition
zaidissa
committed
e9c75dc

Commits on Sep 2, 2026

Flag and report receptors that never matched a GEX cell
zaidissa
committed
637af7e

Commits on Sep 8, 2026

Fix per-sample unmatched-receptor counts in merge_vdj_object summary
zaidissa
committed
89a66ca

Commits on Sep 9, 2026

Cirro: fix preprocessing against a partially-indexed dataset
zaidissa
committed
57d5fe0
Update cirro form
dltamayo
authored
66d4425

Commits on Sep 15, 2026

Bridges: take per-sample files from declared outputs, not CSV paths
zaidissa
committed
31cbc85
Master Summary: handle a blank project name
zaidissa
committed
9399e88

Commits on Sep 16, 2026

VDJ_TO_BULK: keep beta chains with no D-gene call
zaidissa
committed
b844e09