abacas assembly contig to chromosome
I using abacas to perform contig to chromosome assembly. Abacas spread is too much slow. My contig size is 2.2 GB and all contig size is greater than 200 bp. Abacas do not support threads and multiple cores and it takes 6-7 days to perform single chromosome assembly. Is there any way to spread up this process.
This my command:
perl abacas.1.3.1.pl -r chr1.fasta -q contig_200.fa -p nucmer -N -m -b
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You could try and use other scaffolding tools such as SSPACE.