The Mingraph-Cactus pipeline is run with cactus-pangenome. Its input is a text file with two columns, separated by whitespace, denoting sample name and fasta URL, respectively. All output is written to a directory specified with --outDir. All output filenames are prefixed with the value ...
HPRC graphs can be downloaded from https://s3-us-west-2.amazonaws.com/human-pangenomics/index.html?prefix=pangenomes/freeze/freeze1/minigraph-cactus/. Consult the Data Portal for explanations of the different files: https://github.com/human-pangenomics/hpp_pangenome_resources/. Variant calls ...
Here we present the Minigraph-Cactus pangenome pipeline, which creates pangenomes directly from whole-genome alignments, and demonstrate its ability to scale to 90 human haplotypes from the Human Pangenome Reference Consortium. The method builds graphs containing all forms of genetic variation while ...