The emptiness inside: Finding gaps, valleys, and lacunae with geometric data analysis

Discoveries of gaps in data have been important in astrophysics. For example, there are kinematic gaps opened by resonances in dynamical systems, or exoplanets of a certain radius that are empirically rare. A gap in a data set is a kind of anomaly, but in an unusual sense: Instead of being a single outlier data point, situated far from other data points, it is a region of the space, or a set of points, that is anomalous compared to its surroundings. Gaps are both interesting and hard to find and characterize, especially when they have non-trivial shapes. We present in this paper a statistic that can be used to estimate the (local) "gappiness" of a point in the data space. It uses the gradient and Hessian of the density estimate (and thus requires a twice-differentiable density estimator). This statistic can be computed at (almost) any point in the space and does not rely on optimization; it allows to highlight under-dense regions of any dimensionality and shape in a general and efficient way. We illustrate our method on the velocity distribution of nearby stars in the Milky Way disk plane, which exhibits gaps that could originate from different processes. Identifying and characterizing those gaps could help determine their origins. We provide in an Appendix implementation notes and additional considerations for finding under-densities in data, using critical points and the properties of the Hessian of the density.Comment: 17 pages, 10 figures. Submitted to AJ. Comments welcomed. Revision: added 3D gridding + restructured outline: implementation notes (Quadratic Kernel) and methods for approx critical points and 1d-valley now in Anne

The many streams of the Magellanic Stream

We present results from neutral hydrogen (HI) observations of the tip of the Magellanic Stream (MS), obtained with the Arecibo telescope as a part of the on-going survey by the Consortium for Galactic studies with the Arecibo L-band Feed Array. We find four large-scale, coherent HI streams, extending continously over a length of 20 degrees, each stream possessing different morphology and velocity gradients. The newly discovered streams provide strong support for the tidal model of the MS formation by Connors et al. (2006), which suggested a spatial and kinematic bifurcation of the MS. The observed morphology and kinematics suggest that three of these streams could be interpreted as a 3-way splitting of the main MS filament, while the fourth stream appears much younger and may have originated from the Magellanic Bridge. We find an extensive population of HI clouds at the tip of the MS. Two thirds of clouds have an angular size in the range 3.5'--10'. We interpret this as being due to thermal instability, which would affect a warm tail of gas trailing through the Galactic halo over a characteristic timescale of a few Myrs to a few hundred Myrs. We show that thermal fragments can survive in the hot halo for a long time, especially if surrounded by a <10^6 K halo gas. If the observed clumpy structure is mainly due to thermal instability, then the tip of the MS is at a distance of ~70 kpc. A significant fraction of HI clouds at the tip of the MS show multi-phase velocity profiles, indicating the co-existence of cooler and warmer gas.Comment: Accepted by Ap

A peculiar HI cloud near the distant globular cluster Pal 4

We present 21-cm observations of four Galactic globular clusters, as part of the on-going GALFA-HI Survey at Arecibo. We discovered a peculiar HI cloud in the vicinity of the distant (109 kpc) cluster Pal 4, and discuss its properties and likelihood of association with the cluster. We conclude that an association of the HI cloud and Pal 4 is possible, but that a chance coincidence between Pal 4 and a nearby compact high-velocity cloud cannot be ruled out altogether. New, more stringent upper limits were derived for the other three clusters: M 3, NGC 5466, and Pal 13. We briefly discuss the fate of globular cluster gas and the interaction of compact clouds with the Galactic Halo gas.Comment: Accepted for publication in MNRA

The James Webb Space Telescope Mission

Twenty-six years ago a small committee report, building on earlier studies, expounded a compelling and poetic vision for the future of astronomy, calling for an infrared-optimized space telescope with an aperture of at least $4m$. With the support of their governments in the US, Europe, and Canada, 20,000 people realized that vision as the $6.5m$ James Webb Space Telescope. A generation of astronomers will celebrate their accomplishments for the life of the mission, potentially as long as 20 years, and beyond. This report and the scientific discoveries that follow are extended thank-you notes to the 20,000 team members. The telescope is working perfectly, with much better image quality than expected. In this and accompanying papers, we give a brief history, describe the observatory, outline its objectives and current observing program, and discuss the inventions and people who made it possible. We cite detailed reports on the design and the measured performance on orbit.Comment: Accepted by PASP for the special issue on The James Webb Space Telescope Overview, 29 pages, 4 figure

The Helicobacter pylori Genome Project : insights into H. pylori population structure from analysis of a worldwide collection of complete genomes

Helicobacter pylori, a dominant member of the gastric microbiota, shares co-evolutionary history with humans. This has led to the development of genetically distinct H. pylori subpopulations associated with the geographic origin of the host and with differential gastric disease risk. Here, we provide insights into H. pylori population structure as a part of the Helicobacter pylori Genome Project (HpGP), a multi-disciplinary initiative aimed at elucidating H. pylori pathogenesis and identifying new therapeutic targets. We collected 1011 well-characterized clinical strains from 50 countries and generated high-quality genome sequences. We analysed core genome diversity and population structure of the HpGP dataset and 255 worldwide reference genomes to outline the ancestral contribution to Eurasian, African, and American populations. We found evidence of substantial contribution of population hpNorthAsia and subpopulation hspUral in Northern European H. pylori. The genomes of H. pylori isolated from northern and southern Indigenous Americans differed in that bacteria isolated in northern Indigenous communities were more similar to North Asian H. pylori while the southern had higher relatedness to hpEastAsia. Notably, we also found a highly clonal yet geographically dispersed North American subpopulation, which is negative for the cag pathogenicity island, and present in 7% of sequenced US genomes. We expect the HpGP dataset and the corresponding strains to become a major asset for H. pylori genomics