Minia is a short-read assembler based on a de Bruijn graph, capable of assembling a human genome on a desktop computer in a day. The output of Minia is a set of contigs. Minia produces results of similar contiguity and accuracy to other de Bruijn assemblers (e.g. Velvet).
Minia 2.0.7 Linux 64-bits binaries (Source code) (Legacy codebase)
A typical Minia command line looks like:
./minia -in reads.fa -kmer-size 31 -abundance-min 3 -out output_prefix
Type
./minia
for a quick explanation of the parameters.
For more information, refer to the manual.
KmerGenie can be used to determine the best k-mer size, minimum abundance of correct k-mers, and genome size estimation for your dataset.
