Purge Haplotigs

Use this skill for compleasm genome assembly completeness assessment. Route here when users ask about BUSCO-based assembly evaluation, miniprot-based completeness scoring, lineage dataset selection fo

1 shared topic • 3 shared operations

Ensembl Database — EMBL-EBI's comprehensive genome annotation database covering 300+ species with gene models, variants, regulatory features, and comparative genomics. Query via REST API at rest.ensem

1 shared topic • 2 shared operations

GATK HaplotypeCaller — germline short variant caller using localized de novo assembly of haplotypes. Calls SNPs and indels from BAM/CRAM alignment files, producing VCF or gVCF output. Supports single-

1 shared topic • 2 shared operations

IGV (Integrative Genomics Viewer) — high-performance Java desktop application for interactive visualization and exploration of genomic data. Supports BAM/CRAM alignments, VCF variants, BED/GFF annotat

1 shared topic • 2 shared operations

Purge_dups — haplotypic duplication identification and removal tool for genome assemblies. Detects and removes overlapping haplotigs and heterozygous duplications from primary assemblies using read de

1 shared topic • 2 shared operations