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The single-processor version is useful for assembling genomes up to 40-50 Mbases 100 Mbp in size. The parallel version is implemented using MPI and is capable of assembling larger mammalian-sized genomes.
The output of ABySS is a set of contigs assembled from short reads (the input) . The fasta header of each contig has the following format:
>n iii jjjj
Where n is the numeric contig ID, iii is the contig length in nucleotides, and jjjj is the absolute k-mer coverage. A fourth column will be present for paired-end contigs (scaffolds) and is the list of single-end contig IDs that compose that paired-end contig (scaffold). If you suspect a misassembly, it can be informative to look at the single-end contigs.
= ABySS README =
