I just learned from Research in Microbiology that the paper on our software Megraft has now been assigned a volume and an issue. The proper way of referencing Megraft should consequently now be:
Bengtsson J, Hartmann M, Unterseher M, Vaishampayan P, Abarenkov K, Durso L, Bik EM, Garey JR, Eriksson KM, Nilsson RH: Megraft: A software package to graft ribosomal small subunit (16S/18S) fragments onto full-length sequences for accurate species richness and sequencing depth analysis in pyrosequencing-length metagenomes. Research in Microbiology. Volume 163, Issues 6–7 (2012), 407–412, doi: 10.1016/j.resmic.2012.07.001. [Paper link]
Megraft is currently at version 1.0.1, but I have a slightly updated version in the pipeline which will be made available later this fall.