PangeBlocks-wide

PangeBlocks for Human Genomes

How to Use

Flag	Description
--fasta, -f	Path to the input FASTA file
-k	k-mer size for Jaccard index

Minigraph and Graphaligner are expected to be available in the PATH.

The sequences are expected to be given in a single FASTA file like this:

>seq1
ATCGATCGATCG
>seq2
GCTAGCTA
>seq3
TTATCGATCGAATC

The graph is produced on stdout with the gfa format.