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SPIERS and VAXML: A software toolkit for tomographic visualisation and a format for virtual specimen interchang

https://doi.org/10.26879/289
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Synchrotron X-ray tomographic microscopy of fossil embryos
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Large colonial organisms with coordinated growth in oxygenated environments 2.1 Gyr ago
inferredcites →https://doi.org/10.1073/pnas.0809174106openalex-snapshot
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inferredcites →https://doi.org/10.1080/002919699433672openalex-snapshot
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Microanatomy of Early Devonian book lungs
inferredcites →https://doi.org/10.1098/rsbl.2009.0464openalex-snapshot
High-fidelity X-ray micro-tomography reconstruction of siderite-hosted Carboniferous arachnids
inferredcites →https://doi.org/10.1098/rsbl.2010.0199openalex-snapshot
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inferredcites →https://doi.org/10.1098/rsbl.2010.0540openalex-snapshot
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The arthropodOffacolus kingi(Chelicerata) from the Silurian of Herefordshire, England: computer based morphological reconstructions and phylogenetic affinities
inferredcites →https://doi.org/10.1098/rspb.2004.2951openalex-snapshot
A starfish with three-dimensionally preserved soft parts from the Silurian of England
inferredcites →https://doi.org/10.1098/rspb.2008.0263openalex-snapshot
Tomographic techniques for the study of exceptionally preserved fossils
inferredcites →https://doi.org/10.1098/rspb.2009.2122openalex-snapshot
An exceptionally preserved myodocopid ostracod from the Silurian of Herefordshire, UK
inferredcites →https://doi.org/10.1098/rspl.1903.0024openalex-snapshot
A method for the investigation of fossils by serial sections
inferredcites →https://doi.org/10.1098/rstb.1904.0008openalex-snapshot
VIII. A method for the investigation of fossils by serial section
inferredcites →https://doi.org/10.1111/j.0031-0239.2004.00344.xopenalex-snapshot
Surface Laser Scanning of Fossil Insect Wings
inferredcites →https://doi.org/10.1111/j.1365-2818.2008.03100.xopenalex-snapshot
Simple 3D images from fossil and Recent micromaterial using light microscopy
inferredcites →https://doi.org/10.1111/j.1475-4983.2007.00738.xopenalex-snapshot
CHARNIA AT 50: DEVELOPMENTAL MODELS FOR EDIACARAN FRONDS
inferredcites →https://doi.org/10.1126/science.1163399openalex-snapshot
GenBank--Natural History in the 21st Century?
inferredcites →https://doi.org/10.1130/g31296.1openalex-snapshot
Crinoids for lunch? An unexpected biotic interaction from the Upper Ordovician of Scotland
inferredcites →https://doi.org/10.1145/37401.37422openalex-snapshot
Marching cubes: A high resolution 3D surface construction algorithm
inferredcites →https://doi.org/10.1201/9781420050349.ch28openalex-snapshot
Computer-Aided Geometric Design
inferredcites →https://doi.org/10.13025/23765openalex-snapshot
The arthropod offacolus kingi (chelicerata) from the silurian of herefordshire, england: computer based morphological reconstructions and phylogenetic affinities
inferredcites →https://doi.org/10.1371/journal.pone.0004532openalex-snapshot
Estimating Mass Properties of Dinosaurs Using Laser Imaging and 3D Computer Modelling
inferredcites →https://doi.org/10.1511/2008.75.474openalex-snapshot
Virtual Fossils from 425 Million-year-old Volcanic Ash
inferredcites →https://doi.org/10.1603/033.046.0538openalex-snapshot
Forensic Entomology: An Introduction
inferredcites →https://doi.org/10.1666/0094-8373(2001)027<0159:drocem>2.0.co;2openalex-snapshot
Digital reconstruction of calcified early metazoans, terminal Proterozoic Nama Group, Namibia
inferredcites →https://doi.org/10.26879/253openalex-snapshot
A taxonomic revision of orthosternous scorpions from the English Coal-measures aided by X-ray Micro-Tomography (XMT)
inferredcites →https://doi.org/10.26879/264openalex-snapshot
Acquisition of high resolution three-dimensional models using free, open-source, photogrammetric software
inferredcites →https://doi.org/10.26879/268openalex-snapshot
The enigmatic arthropod Camptophyllia
inferredcites →https://doi.org/10.26879/284openalex-snapshot
A palaeobiologist's guide to 'virtual' micro-CT preparation
inferredcites →https://doi.org/10.4202/app.2008.0308openalex-snapshot
The Stem Crustacean Oelandocaris oelandica Re-Visited
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Anatomical imaging: towards a new morphology

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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X-ray microtomography of the late Carboniferous whip scorpions (Arachnida, Thelyphonida) Geralinura britannica and Proschizomus petrunkevitchi
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Looking into the puparium: Micro‐CT visualization of the internal morphological changes during metamorphosis of the blow fly, Calliphora vicina, with the first quantitative analysis of organ development in cyclorrhaphous dipterans
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Skull osteology of Vipera walser (Squamata, Viperidae): Description, variability, ontogeny, and diagnostic characters in comparison to other Italian vipers
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A Silurian ophiuroid with soft‐tissue preservation
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The maxillary canal of the titanosuchid Jonkeria (Synapsida, Dinocephalia)
inferred← citeshttps://doi.org/10.1007/s12052-012-0458-2openalex-snapshot
Virtual Fossils: a New Resource for Science Communication in Paleontology
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Palaeontology in the third dimension: a comprehensive guide for the integration of three-dimensional content in publications
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The nano-scale anatomy of a complex carbon-lined microtube in volcanic glass from the ~92Ma Troodos Ophiolite, Cyprus
inferred← citeshttps://doi.org/10.1016/j.cub.2014.03.039openalex-snapshot
A Paleozoic Stem Group to Mite Harvestmen Revealed through Integration of Phylogenetics and Development
inferred← citeshttps://doi.org/10.1016/j.cub.2015.04.035openalex-snapshot
A 425-Million-Year-Old Silurian Pentastomid Parasitic on Ostracods
inferred← citeshttps://doi.org/10.1016/j.gr.2015.07.010openalex-snapshot
3.46 Ga Apex chert ‘microfossils’ reinterpreted as mineral artefacts produced during phyllosilicate exfoliation
inferred← citeshttps://doi.org/10.1016/j.palaeo.2015.07.021openalex-snapshot
Miocene Clypeaster from Valencia (E Spain): Insights into the taphonomy and ichnology of bioeroded echinoids using X-ray micro-tomography
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Taphonomy of very ancient microfossils from the ∼3400Ma Strelley Pool Formation and ∼1900Ma Gunflint Formation: New insights using a focused ion beam
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Geochemistry and nano-structure of a putative ∼3240 million-year-old black smoker biota, Sulphur Springs Group, Western Australia
inferred← citeshttps://doi.org/10.1016/j.precamres.2016.05.013openalex-snapshot
The Late Cryogenian Warm Interval, NE Svalbard: Chemostratigraphy and genesis
inferred← citeshttps://doi.org/10.1016/j.quaint.2015.06.068openalex-snapshot
Digitizing, modelling and 3D printing of skeletal digital models of Palaeoloxodon tiliensis (Tilos, Dodecanese, Greece)
inferred← citeshttps://doi.org/10.1016/j.revpalbo.2012.09.001openalex-snapshot
Combined methodologies for three-dimensional reconstruction of fossil plants preserved in siderite nodules: Stephanospermum braidwoodensis nov. sp. (Medullosales) from the Mazon Creek lagerstätte
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A virtual world of paleontology
inferred← citeshttps://doi.org/10.1017/jpa.2021.31openalex-snapshot
Microcomputed tomography of the holotype of the early tetrapodIchthyerpeton bradleyae(Huxley in Wright and Huxley, 1866) from the Pennsylvanian of Ireland
inferred← citeshttps://doi.org/10.1017/scs.2017.10openalex-snapshot
DIGITAL RECONSTRUCTION OF SOFT-TISSUE STRUCTURES IN FOSSILS
inferred← citeshttps://doi.org/10.1017/scs.2017.11openalex-snapshot
APPLICATIONS OF THREE-DIMENSIONAL BOX MODELING TO PALEONTOLOGICAL FUNCTIONAL ANALYSIS
inferred← citeshttps://doi.org/10.1017/scs.2017.5openalex-snapshot
VIRTUAL PALEONTOLOGY—AN OVERVIEW
inferred← citeshttps://doi.org/10.1029/2025gl114704openalex-snapshot
Correlative Tomography for Polymineralic Inclusion Composition in Sublithospheric Diamonds
inferred← citeshttps://doi.org/10.1038/nature11328openalex-snapshot
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inferred← citeshttps://doi.org/10.1038/s41477-019-0468-yopenalex-snapshot
Fossil evidence of core monocots in the Early Cretaceous
inferred← citeshttps://doi.org/10.1038/s41559-017-0301-9openalex-snapshot
Ichnological evidence for meiofaunal bilaterians from the terminal Ediacaran and earliest Cambrian of Brazil
inferred← citeshttps://doi.org/10.1038/s41597-020-00614-yopenalex-snapshot
CroSSED sequence, a new tool for 3D processing in geosciences using the free software 3DSlicer
inferred← citeshttps://doi.org/10.1038/s41598-018-25227-9openalex-snapshot
Energy and time optimal trajectories in exploratory jumps of the spider Phidippus regius
inferred← citeshttps://doi.org/10.1038/sdata.2017.47openalex-snapshot
X-ray computed tomography library of shark anatomy and lower jaw surface models
inferred← citeshttps://doi.org/10.1038/srep06972openalex-snapshot
Hollow rhodoliths increase Svalbard's shelf biodiversity
inferred← citeshttps://doi.org/10.1073/pnas.1205875109openalex-snapshot
Silurian horseshoe crab illuminates the evolution of arthropod limbs
inferred← citeshttps://doi.org/10.1080/14772019.2015.1018969openalex-snapshot
Carboniferous araneomorph spiders reinterpreted as long-bodied harvestmen
inferred← citeshttps://doi.org/10.1093/aob/mcaf277openalex-snapshot
Comparative rhizotaxy of fossil and living isoetalean rhizomorphs reveals development through rootlet intercalation within a triangular lattice
inferred← citeshttps://doi.org/10.1098/rsbl.2015.0776openalex-snapshot
Early post-metamorphic, Carboniferous blastoid reveals the evolution and development of the digestive system in echinoderms
inferred← citeshttps://doi.org/10.1098/rsif.2013.0304openalex-snapshot
Metamorphosis revealed: time-lapse three-dimensional imaging inside a living chrysalis
inferred← citeshttps://doi.org/10.1098/rsos.160699openalex-snapshot
The ‘dance’ of life: visualizing metamorphosis during pupation in the blow fly Calliphora vicina by X-ray video imaging and micro-computed tomography
inferred← citeshttps://doi.org/10.1098/rsos.190911openalex-snapshot
Three-dimensionally preserved soft tissues and calcareous hexactins in a Silurian sponge: implications for early sponge evolution
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Three-dimensional segmentation of computed tomography data using Drishti Paint : new tools and developments
inferred← citeshttps://doi.org/10.1098/rsos.230661openalex-snapshot
A vicissicaudatan arthropod from the Silurian Herefordshire Lagerstätte, UK
inferred← citeshttps://doi.org/10.1098/rspb.2012.2664openalex-snapshot
A Silurian myodocope with preserved soft-parts: cautioning the interpretation of the shell-based ostracod record
inferred← citeshttps://doi.org/10.1098/rspb.2013.2986openalex-snapshot
A Silurian short-great-appendage arthropod
inferred← citeshttps://doi.org/10.1098/rspb.2014.2663openalex-snapshot
Enalikter aphson is an arthropod: a reply to Struck et al . (2014)
inferred← citeshttps://doi.org/10.1098/rspb.2015.0724openalex-snapshot
Experimental reduction of intromittent organ length reduces male reproductive success in a bug
inferred← citeshttps://doi.org/10.1098/rspb.2016.0125openalex-snapshot
Almost a spider: a 305-million-year-old fossil arachnid and spider origins
inferred← citeshttps://doi.org/10.1098/rspb.2017.0194openalex-snapshot
Open data and digital morphology
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Whole-body photoreceptor networks are independent of ‘lenses’ in brittle stars
inferred← citeshttps://doi.org/10.1098/rspb.2022.0258openalex-snapshot
Heterochrony and parallel evolution of echinoderm, hemichordate and cephalochordate internal bars
inferred← citeshttps://doi.org/10.1098/rstb.2016.0502openalex-snapshot
New insights into the evolutionary history of Fungi from a 407 Ma Blastocladiomycota fossil showing a complex hyphal thallus
inferred← citeshttps://doi.org/10.1101/2025.03.14.643340openalex-snapshot
Prototaxites was an extinct lineage of multicellular terrestrial eukaryotes
inferred← citeshttps://doi.org/10.1111/ivb.12130openalex-snapshot
Carboniferous Onychophora from Montceau‐les‐Mines, France, and onychophoran terrestrialization
inferred← citeshttps://doi.org/10.1111/pala.12181openalex-snapshot
A novel respiratory architecture in the S ilurian mollusc A caenoplax
inferred← citeshttps://doi.org/10.1130/g38773.1openalex-snapshot
Pyritized in situ trilobite eggs from the Ordovician of New York (Lorraine Group): Implications for trilobite reproductive biology
inferred← citeshttps://doi.org/10.1144/jgs2019-110openalex-snapshot
The Herefordshire Lagerstätte: fleshing out Silurian marine life
inferred← citeshttps://doi.org/10.1144/jmpaleo2014-032openalex-snapshot
The 2014 recipient of the Brady Medal: Professor David J. Siveter
inferred← citeshttps://doi.org/10.1144/sp448.11openalex-snapshot
X-ray microtomography as a tool for investigating the petrological context of Precambrian cellular remains
inferred← citeshttps://doi.org/10.1144/sp448.3openalex-snapshot
Remarkable preservation of brain tissues in an Early Cretaceous iguanodontian dinosaur
inferred← citeshttps://doi.org/10.1186/s10152-021-00547-yopenalex-snapshot
Methods to study organogenesis in decapod crustacean larvae II: analysing cells and tissues
inferred← citeshttps://doi.org/10.1186/s12862-017-0931-1openalex-snapshot
The phylogeny of fossil whip spiders
inferred← citeshttps://doi.org/10.1186/s40851-021-00177-9openalex-snapshot
Structure of a hinge joint with textured sliding surfaces in terrestrial isopods (Crustacea: Isopoda: Oniscidea)
inferred← citeshttps://doi.org/10.1242/jeb.230961openalex-snapshot
Estimation of sinking velocities using free-falling dynamically scaled models: foraminifera as a test case
inferred← citeshttps://doi.org/10.1371/journal.pone.0038296openalex-snapshot
Plated Cambrian Bilaterians Reveal the Earliest Stages of Echinoderm Evolution
inferred← citeshttps://doi.org/10.1371/journal.pone.0045779openalex-snapshot
Tomographic Reconstruction of Neopterous Carboniferous Insect Nymphs
inferred← citeshttps://doi.org/10.1371/journal.pone.0199984openalex-snapshot
Reassessment of the enigmatic crocodyliform "Goniopholis" paulistanus Roxo, 1936: Historical approach, systematic, and description by new materials
inferred← citeshttps://doi.org/10.1666/13-088openalex-snapshot
The walking dead: Blender as a tool for paleontologists with a case study on extinct arachnids
inferred← citeshttps://doi.org/10.1666/13-094openalex-snapshot
Virtual reconstruction of endocast anatomy in early ray-finned fishes (Osteichthyes, Actinopterygii)
inferred← citeshttps://doi.org/10.2174/1386207322666190222122007openalex-snapshot
Ultrastructural Analysis of Human Gallstones using Synchrotron Radiation µCT
inferred← citeshttps://doi.org/10.24385/lincoln.24326140openalex-snapshot
Linking Shape and Sinking Speed in Planktonic Foraminifera
inferred← citeshttps://doi.org/10.26879/253openalex-snapshot
A taxonomic revision of orthosternous scorpions from the English Coal-measures aided by X-ray Micro-Tomography (XMT)
inferred← citeshttps://doi.org/10.26879/268openalex-snapshot
The enigmatic arthropod Camptophyllia
inferred← citeshttps://doi.org/10.26879/284openalex-snapshot
A palaeobiologist's guide to 'virtual' micro-CT preparation
inferred← citeshttps://doi.org/10.3897/zookeys.263.4261openalex-snapshot
Micro-computed tomography: Introducing new dimensions to taxonomy
inferred← citeshttps://doi.org/10.4202/app.00048.2013openalex-snapshot
The youngest ctenocystoids from the Upper Ordovician of the United Kingdom and the evolution of the bilateral body plan in echinoderms
inferred← citeshttps://doi.org/10.4202/app.2012.0032openalex-snapshot
Tomographic reconstruction of the exceptionally preserved trigonotarbid arachnid Eophrynus prestvicii
inferred← citeshttps://doi.org/10.70675/623b8753z3933z497bzb98fz08eb8e3ebdc3openalex-snapshot
Paleobiology of the Ediacaran biota during and after the Kotlinian Crisis event : Insights from palaeopascichnids and microbially induced morphostructures
inferred← citeshttps://doi.org/10.7717/peerj.1450openalex-snapshot
Palaeogeographic implications of a new iocrinid crinoid (Disparida) from the Ordovician (Darriwillian) of Morocco
inferred← citeshttps://doi.org/10.7717/peerj.1906openalex-snapshot
Jaw anatomy ofPotamogale velox(Tenrecidae, Afrotheria) with a focus on cranial arteries and the coronoid canal in mammals
inferred← citeshttps://doi.org/10.7717/peerj.3526openalex-snapshot
3D-Analysis of a non-planispiral ammonoid from the Hunsrück Slate: natural or pathological variation?
inferred← citeshttps://doi.org/10.7717/peerj.624openalex-snapshot
X-ray Synchrotron Microtomography of a silicified Jurassic Cheirolepidiaceae (Conifer) cone: histology and morphology ofPararaucaria collinsonaesp. nov.
inferred← citeshttps://doi.org/10.7717/peerj.641openalex-snapshot
Three-dimensional reconstruction and the phylogeny of extinct chelicerate orders
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