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Cardona A, Tomancak P.  2012.  Current challenges in open-source bioimage informatics.. Nature Methods. 9(7):661-5.
Cardona A, Saalfeld S, Schindelin J, Arganda-Carreras I, Preibisch S, Longair M, Tomancak P, Hartenstein V, Douglas RJ.  2012.  TrakEM2 software for neural circuit reconstruction.. PLoS One. 7:e38011.
Cardona A, Larsen C, Hartenstein V..  2009.  Neuronal fiber tracts connecting the brain and ventral nerve cord of the early Drosophila larva.. The Journal of Comparative Neurology. 515(4):427-40.
Cardona A, Hartenstein V, Romero R.  2006.  Early embryogenesis of planaria: a cryptic larva feeding on maternal resources.. Development Genes & Evolution. 216(11):667-81.
Cardona A, Fernández J, Solana J, Romero R.  2005.  An in situ hybridization protocol for planarian embryos: monitoring myosin heavy chain gene expression.. Development Genes & Evolution. 215(9):482-88.
Cardona A, Hartenstein V, Romero R.  2005.  The embryonic development of the triclad Schmidtea polychroa.. Development Genes & Evolution. 215(3):109-31.
Cardona A, Saalfeld S, Schindelin J, Arganda-Carreras I, Preibisch S, Longair M, Tomancak P, Hartenstein V, Douglas RJ.  2012.  TrakEM2 software for neural circuit reconstruction.. PLoS One. 7(6):e38011.
Cardona A, Saalfeld S, Preibisch S, Schmid B, Cheng A, Pulokas J, Tomancak P, Hartenstein V..  2010.  An integrated micro- and macroarchitectural analysis of the Drosophila brain by computer-assisted serial section electron microscopy.. PLoS Biology. 8(10)
Cardona A, Saalfeld S, Arganda I, Pereanu W, Schindelin J, Hartenstein V..  2010.  Identifying neuronal lineages of Drosophila by sequence analysis of axon tracts.. The Journal of Neuroscience. 30(22):7538-53.