GCAT|Panel

R scripts to reproduce work from:

Valls-Margarit et al. GCAT|Panel, a comprehensive structural variant haplotype map of the Iberian population from high-coverage whole-genome sequencing. Submitted.

1 Logistic Regression Model (LRM)

Code to generate the LRM using insilico data for each Structural Variant (SV) type (mid DEL: Deletions 30-150bp; DEL: Deletions; DUP: Duplications; INS: Insertions; INV: Inversions; TRA: Translocations).

2 Merge callers

Code to merge variant callers for each GCAT individual and SV type.

3 Merge samples

Code to merge all GCAT samples for each SV type.