3,731 research outputs found
TreeRipper web application: towards a fully automated optical tree recognition software
Background: Relationships between species, genes and genomes have been printed as trees for over a century. Whilst this may have been the best format for exchanging and sharing phylogenetic hypotheses during the 20(th) century, the worldwide web now provides faster and automated ways of transferring and sharing phylogenetic knowledge. However, novel software is needed to defrost these published phylogenies for the 21(st) century. Results: TreeRipper is a simple website for the fully-automated recognition of multifurcating phylogenetic trees (http://linnaeus.zoology.gla.ac.uk/similar to jhughes/treeripper/). The program accepts a range of input image formats (PNG, JPG/JPEG or GIF). The underlying command line c++ program follows a number of cleaning steps to detect lines, remove node labels, patch-up broken lines and corners and detect line edges. The edge contour is then determined to detect the branch length, tip label positions and the topology of the tree. Optical Character Recognition (OCR) is used to convert the tip labels into text with the freely available tesseract-ocr software. 32% of images meeting the prerequisites for TreeRipper were successfully recognised, the largest tree had 115 leaves. Conclusions: Despite the diversity of ways phylogenies have been illustrated making the design of a fully automated tree recognition software difficult, TreeRipper is a step towards automating the digitization of past phylogenies. We also provide a dataset of 100 tree images and associated tree files for training and/or benchmarking future software. TreeRipper is an open source project licensed under the GNU General Public Licence v
Silver(I) and mercury(II) complexes of meta- and para-xylyl linked bis(imidazol-2-ylidenes)
Mononuclear silver and mercury complexes bearing bis-N-heterocyclic carbene (NHC) ligands withlinear coordination modes have been prepared and structurally characterised. The complexes form metallocyclic structures that display rigid solution behaviour. A larger metallocycle of the form [L2Ag2]2+ [where L = parabis(N-methylimidazolylidene)xylylene] has been isolated from the reaction of para-xylylene-bis(N-methylimidazolium) chloride and Ag2O. Reaction of silver- and mercury-NHC complexes with Pd(NCCH3)2Cl2 affords palladium-NHC complexes via NHC-transfer reactions, the mercury case being only the second example of a NHC-transfer reaction using a mercury-NHC complex
Collapse of superconductivity in a hybrid tin-graphene Josephson junction array
When a Josephson junction array is built with hybrid
superconductor/metal/superconductor junctions, a quantum phase transition from
a superconducting to a two-dimensional (2D) metallic ground state is predicted
to happen upon increasing the junction normal state resistance. Owing to its
surface-exposed 2D electron gas and its gate-tunable charge carrier density,
graphene coupled to superconductors is the ideal platform to study the
above-mentioned transition between ground states. Here we show that decorating
graphene with a sparse and regular array of superconducting nanodisks enables
to continuously gate-tune the quantum superconductor-to-metal transition of the
Josephson junction array into a zero-temperature metallic state. The
suppression of proximity-induced superconductivity is a direct consequence of
the emergence of quantum fluctuations of the superconducting phase of the
disks. Under perpendicular magnetic field, the competition between quantum
fluctuations and disorder is responsible for the resilience at the lowest
temperatures of a superconducting glassy state that persists above the upper
critical field. Our results provide the entire phase diagram of the disorder
and magnetic field-tuned transition and unveil the fundamental impact of
quantum phase fluctuations in 2D superconducting systems.Comment: 25 pages, 6 figure
Electronic Spin Transport in Dual-Gated Bilayer Graphene
The elimination of extrinsic sources of spin relaxation is key in realizing
the exceptional intrinsic spin transport performance of graphene. Towards this,
we study charge and spin transport in bilayer graphene-based spin valve devices
fabricated in a new device architecture which allows us to make a comparative
study by separately investigating the roles of substrate and polymer residues
on spin relaxation. First, the comparison between spin valves fabricated on
SiO2 and BN substrates suggests that substrate-related charged impurities,
phonons and roughness do not limit the spin transport in current devices. Next,
the observation of a 5-fold enhancement in spin relaxation time in the
encapsulated device highlights the significance of polymer residues on spin
relaxation. We observe a spin relaxation length of ~ 10 um in the encapsulated
bilayer with a charge mobility of 24000 cm2/Vs. The carrier density dependence
of spin relaxation time has two distinct regimes; n<4 x 1012 cm-2, where spin
relaxation time decreases monotonically as carrier concentration increases, and
n>4 x 1012 cm-2, where spin relaxation time exhibits a sudden increase. The
sudden increase in the spin relaxation time with no corresponding signature in
the charge transport suggests the presence of a magnetic resonance close to the
charge neutrality point. We also demonstrate, for the first time, spin
transport across bipolar p-n junctions in our dual-gated device architecture
that fully integrates a sequence of encapsulated regions in its design. At low
temperatures, strong suppression of the spin signal was observed while a
transport gap was induced, which is interpreted as a novel manifestation of
impedance mismatch within the spin channel
Stable ultrahigh-density magneto-optical recordings using introduced linear defects
The stability of data bits in magnetic recording media at ultrahigh densities
is compromised by thermal `flips' -- magnetic spin reversals -- of nano-sized
spin domains, which erase the stored information. Media that are magnetized
perpendicular to the plane of the film, such as ultrathin cobalt films or
multilayered structures, are more stable against thermal self-erasure than
conventional memory devices. In this context, magneto-optical memories seem
particularly promising for ultrahigh-density recording on portable disks, and
bit densities of 100 Gbit inch have been demonstrated using recent
advances in the bit writing and reading techniques. But the roughness and
mobility of the magnetic domain walls prevents closer packing of the magnetic
bits, and therefore presents a challenge to reaching even higher bit densities.
Here we report that the strain imposed by a linear defect in a magnetic thin
film can smooth rough domain walls over regions hundreds of micrometers in
size, and halt their motion. A scaling analysis of this process, based on the
generic physics of disorder-controlled elastic lines, points to a simple way by
which magnetic media might be prepared that can store data at densities in
excess of 1 Tbit inch.Comment: 5 pages, 4 figures, see also an article in TRN News at
http://www.trnmag.com/Stories/041801/Defects_boost_disc_capacity_041801.htm
The African Women's Protocol: Bringing Attention to Reproductive Rights and the MDGs
Andrew Gibbs and colleagues discuss the African Women's Protocol, a framework for ensuring reproductive rights are supported throughout the continent and for supporting interventions to improve women's reproductive health, including the MDGs
LHC Predictions from a Tevatron Anomaly in the Top Quark Forward-Backward Asymmetry
We examine the implications of the recent CDF measurement of the top-quark
forward-backward asymmetry, focusing on a scenario with a new color octet
vector boson at 1-3 TeV. We study several models, as well as a general
effective field theory, and determine the parameter space which provides the
best simultaneous fit to the CDF asymmetry, the Tevatron top pair production
cross section, and the exclusion regions from LHC dijet resonance and contact
interaction searches. Flavor constraints on these models are more subtle and
less severe than the literature indicates. We find a large region of allowed
parameter space at high axigluon mass and a smaller region at low mass; we
match the latter to an SU(3)xSU(3)/SU(3) coset model with a heavy vector-like
fermion. Our scenario produces discoverable effects at the LHC with only 1-2
inverse femtobarns of luminosity at 7-8 TeV. Lastly, we point out that a
Tevatron measurement of the b-quark forward-backward asymmetry would be very
helpful in characterizing the physics underlying the top-quark asymmetry.Comment: 35 pages, 10 figures, 4 table
Strongly anisotropic spin relaxation in graphene/transition metal dichalcogenide heterostructures at room temperature
Graphene has emerged as the foremost material for future two-dimensional
spintronics due to its tuneable electronic properties. In graphene, spin
information can be transported over long distances and, in principle, be
manipulated by using magnetic correlations or large spin-orbit coupling (SOC)
induced by proximity effects. In particular, a dramatic SOC enhancement has
been predicted when interfacing graphene with a semiconducting transition metal
dechalcogenide, such as tungsten disulphide (WS). Signatures of such an
enhancement have recently been reported but the nature of the spin relaxation
in these systems remains unknown. Here, we unambiguously demonstrate
anisotropic spin dynamics in bilayer heterostructures comprising graphene and
WS. By using out-of-plane spin precession, we show that the spin lifetime
is largest when the spins point out of the graphene plane. Moreover, we observe
that the spin lifetime varies over one order of magnitude depending on the spin
orientation, indicating that the strong spin-valley coupling in WS is
imprinted in the bilayer and felt by the propagating spins. These findings
provide a rich platform to explore coupled spin-valley phenomena and offer
novel spin manipulation strategies based on spin relaxation anisotropy in
two-dimensional materials
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