We analyze the performance of deep neural architectures for extracting shape representations of binary images, and for generating low-dimensional representations of them. In particular, we focus on indexing binary images exhibiting compounds of Maya hieroglyphic signs, referred to as glyph-blocks, which constitute a very challenging dataset of arts given their visual complexity and large stylistic variety. More precisely, we demonstrate empirically that intermediate outputs of convolutional neural networks can be used as representations for complex shapes, even when their parameters are trained on gray-scale images, and that these representations can be more robust than traditional handcrafted features. We also show that it is possible to compress such representations up to only three dimensions without harming much of their discriminative structure, such that effective visualization of Maya hieroglyphs can be rendered for subsequent epigraphic analysis.