pangenome/HumanPangenomeBYOD2024

Material for the Human Pangenome Bring Your Own Data (BYOD) analysis Workshop 2024, October 21-25 in Cape Town, South Africa. # Human Pangenome Bring Your Own Data (BYOD) analysis Workshop 2024 Material for the **Human Pangenome Bring Your Own Data (BYOD) analysis Workshop 2024**, October 21-25 in Cape Town, South Africa. The event was sponsored by eLwazi ## Table of Contents * Reference-based pangenome graph building * Constructing and viewing your first graphs * Small pangenome graph building from sequence alignments * Building HLA pangenome graphs * Building LPA pangenome graphs * Human pangenome graph building from sequence alignments * Pangenome Sequence Naming * Sequence partitioning * Building chromosome-specific pangenome graphs * Understanding pangenome graphs * MHC locus * Graph extraction * Graph untangling * Annotation injection * Short read mapping and variant calling * Hacking with our data * Haplotype deconvolution ## Previous editions - 2023 - github.com