21-cm signatures of residual HI inside cosmic HII regions during reionization

We investigate the impact of sinks of ionizing radiation on the reionization-era 21-cm signal, focusing on 1-point statistics. We consider sinks in both the intergalactic medium and inside galaxies. At a fixed filling factor of HII regions, sinks will have two main effects on the 21-cm morphology: (i) as inhomogeneous absorbers of ionizing photons they result in smaller and more widespread cosmic HII patches; and (ii) as reservoirs of neutral gas they contribute a non-zero 21-cm signal in otherwise ionized regions. Both effects damp the contrast between neutral and ionized patches during reionization, making detection of the epoch of reionization with 21-cm interferometry more challenging. Here we systematically investigate these effects using the latest semi-numerical simulations. We find that sinks dramatically suppress the peak in the redshift evolution of the variance, corresponding to the midpoint of reionization. As previously predicted, skewness changes sign at midpoint, but the fluctuations in the residual HI suppress a late-time rise. Furthermore, large levels of residual HI dramatically alter the evolution of the variance, skewness and power spectrum from that seen at lower levels. In general, the evolution of the large-scale modes provides a better, cleaner, higher signal-to-noise probe of reionization.Comment: Minor edits to agree with MNRAS published versio

Lyman-alpha Damping Wing Constraints on Inhomogeneous Reionization

One well-known way to constrain the hydrogen neutral fraction, x_H, of the high-redshift intergalactic medium (IGM) is through the shape of the red damping wing of the Lya absorption line. We examine this method's effectiveness in light of recent models showing that the IGM neutral fraction is highly inhomogeneous on large scales during reionization. Using both analytic models and "semi-numeric" simulations, we show that the "picket-fence" absorption typical in reionization models introduces both scatter and a systematic bias to the measurement of x_H. In particular, we show that simple fits to the damping wing tend to overestimate the true neutral fraction in a partially ionized universe, with a fractional error of ~ 30% near the middle of reionization. This bias is generic to any inhomogeneous model. However, the bias is reduced and can even underestimate x_H if the observational sample only probes a subset of the entire halo population, such as quasars with large HII regions. We also find that the damping wing absorption profile is generally steeper than one would naively expect in a homogeneously ionized universe. The profile steepens and the sightline-to-sightline scatter increases as reionization progresses. Of course, the bias and scatter also depend on x_H and so can, at least in principle, be used to constrain it. Damping wing constraints must therefore be interpreted by comparison to theoretical models of inhomogeneous reionization.Comment: 11 pages, 10 figures; submitted to MNRA

Numerical methods used in atmospheric models

Methods used for the solution of hydrodynamic governing equations in numerical models of the atmosphere are discussed. In particular grid point finite difference methods and problems and methods used for time and horizontal space differencing are covered. Specific problems relating to the numerical solution of the advection and gravity wave equations are discussed. Volume

The Effect of Absorption Systems on Cosmic Reionization

We use large-scale simulations to investigate the morphology of reionization during the final, overlap phase. Our method uses an efficient three-dimensional smoothing technique which takes into account the finite mean free path due to absorption systems, lambda, by only smoothing over scales R_s<lambda. The large dynamic range of our calculations is necessary to resolve the neutral patches left at the end of reionization within a representative volume; we find that simulation volumes exceeding several hundred Mpc on a side are necessary in order to properly model reionization when the neutral fraction is ~0.01-0.3. Our results indicate a strong dependence of percolation morphology on a large and uncertain region of model parameter space. The single most important parameter is the mean free path to absorption systems, which serve as opaque barriers to ionizing radiation. If these absorption systems were as abundant as some realistic estimates indicate, the spatial structure of the overlap phase is considerably more complex than previously predicted. In view of the lack of constraints on the mean free path at the highest redshifts, current theories that do not include absorption by Lyman-limit systems, and in particular three-dimensional simulations, may underestimate the abundance of neutral clouds at the end of reionization. This affects predictions for the 21 cm signal associated with reionization, interpretation of absorption features in quasar spectra at z ~5-6, the connection between reionization and the local universe, and constraints on the patchiness and duration of reionization from temperature fluctuations measured in the cosmic microwave background arising from the kinetic Sunyaev-Zel'dovich effect.Comment: Accepted for publication in the Astrophysical Journal. Substantial revision from previous version. Comments welcom

Detectability of the First Cosmic Explosions

We present a fully self-consistent simulation of a synthetic survey of the furthermost cosmic explosions. The appearance of the first generation of stars (Population III) in the Universe represents a critical point during cosmic evolution, signaling the end of the dark ages, a period of absence of light sources. Despite their importance, there is no confirmed detection of Population III stars so far. A fraction of these primordial stars are expected to die as pair-instability supernovae (PISNe), and should be bright enough to be observed up to a few hundred million years after the big bang. While the quest for Population III stars continues, detailed theoretical models and computer simulations serve as a testbed for their observability. With the upcoming near-infrared missions, estimates of the feasibility of detecting PISNe are not only timely but imperative. To address this problem, we combine state-of-the-art cosmological and radiative simulations into a complete and self-consistent framework, which includes detailed features of the observational process. We show that a dedicated observational strategy using $\lesssim 8$ per cent of total allocation time of the James Webb Space Telescope mission can provide us up to $\sim 9-15$ detectable PISNe per year.Comment: 9 pages, 8 figures. Minor corrections added to match published versio

Beacons into the Cosmic Dark Ages: Boosted transmission of Lyα\alpha from UV bright galaxies at z≳7z \gtrsim 7

Recent detections of Lyman alpha (Ly$\alpha$) emission from $z>7.5$ galaxies were somewhat unexpected given a dearth of previous non-detections in this era when the intergalactic medium (IGM) is still highly neutral. But these detections were from UV bright galaxies, which preferentially live in overdensities which reionize early, and have significantly Doppler-shifted Ly$\alpha$ line profiles emerging from their interstellar media (ISM), making them less affected by the global IGM state. Using a combination of reionization simulations and empirical ISM models we show, as a result of these two effects, UV bright galaxies in overdensities have $>2\times$ higher transmission through the $z\sim7$ IGM than typical field galaxies, and this boosted transmission is enhanced as the neutral fraction increases. The boosted transmission is not sufficient to explain the observed high Ly$\alpha$ fraction of $M_\mathrm{UV} \lesssim -22$ galaxies (Stark et al. 2017), suggesting Ly$\alpha$ emitted by these galaxies must be stronger than expected due to enhanced production and/or selection effects. Despite the bias of UV bright galaxies to reside in overdensities we show Ly$\alpha$ observations of such galaxies can accurately measure the global neutral hydrogen fraction, particularly when Ly$\alpha$ from UV faint galaxies is extinguished, making them ideal candidates for spectroscopic follow-up into the cosmic Dark Ages.Comment: 6 pages, 5 figures. Accepted for publication in ApJ

Interpreting the Transmission Windows of Distant Quasars

We propose the Apparent Shrinking Criterion (ASC) to interpret the spatial extent, R_w, of transmitted flux windows in the absorption spectra of high-z quasars. The ASC can discriminate between the two regimes in which R_w corresponds either to the physical size, R_HII, of the quasar HII region, or to the distance, R^{max}_w, at which the transmitted flux drops to =0.1 and a Gunn-Peterson (GP) trough appears. In the first case (HR regime), one can determine the IGM mean HI fraction, x_HI; in the second (PR regime), the value of R_w allows to measure the local photoionization rate and the local enhancement of the photoionization rate, Gamma_G, due to nearby/intervening galaxies. The ASC has been tested against radiative transfer+SPH numerical simulations, and applied to 15 high-z (z>5.8) quasars sample from Fan et al. (2006). All sample quasars are found to be in the PR regime; hence, their observed spectral properties (inner flux profile, extent of transmission window) cannot reliably constrain the value of x_HI. Four sample quasars show evidence for a local enhancement (up to 50%) in the local photoionization rate possibly produced by a galaxy overdensity. We discuss the possible interpretations and uncertainties of this result.Comment: 10 pages, 2 figures, accepted for publication in MNRA

Efficient Simulations of Early Structure Formation and Reionization

We present a method to construct semi-numerical ``simulations'', which can efficiently generate realizations of halo distributions and ionization maps at high redshifts. Our procedure combines an excursion-set approach with first-order Lagrangian perturbation theory and operates directly on the linear density and velocity fields. As such, the achievable dynamic range with our algorithm surpasses the current practical limit of N-body codes by orders of magnitude. This is particularly significant in studies of reionization, where the dynamic range is the principal limiting factor. We test our halo-finding and HII bubble-finding algorithms independently against N-body simulations with radiative transfer and obtain excellent agreement. We compute the size distributions of ionized and neutral regions in our maps. We find even larger ionized bubbles than do purely analytic models at the same volume-weighted mean hydrogen neutral fraction. We also generate maps and power spectra of 21-cm brightness temperature fluctuations, which for the first time include corrections due to gas bulk velocities. We find that velocities widen the tails of the temperature distributions and increase small-scale power, though these effects quickly diminish as reionization progresses. We also include some preliminary results from a simulation run with the largest dynamic range to date: a 250 Mpc box that resolves halos with masses M >~ 2.2 x10^8 M_sun. We show that accurately modeling the late stages of reionization requires such large scales. The speed and dynamic range provided by our semi-numerical approach will be extremely useful in the modeling of early structure formation and reionization.Comment: 13 pages, 10 figures; ApJ submitte