arXiv subjects

Ryan A. Loomis

Publications and source records attributed to Ryan A. Loomis.

At least 19 recordsLinked to original sources

arXiv2026

Efficient Regression Models for Scan Statistics

We introduce a new class of regression models for scan statistics on real-valued signals. These allow for improved fitting of non-stationary signals to contrast with the interval anomalies identified by the scan statistics. Our models can represent generalized likelihood ratio statistics. While these methods naively require $O(n^4)$ for a length $n$ signal, we provide algorithmic improvements which lead to linear time algorithms (with assumptions on max interval width). Our methods, especially ones based on Nadaraya-Watson kernel regression, are demonstrated as especially effective in detecting both synthetically planted anomalies, and for identifying a real ``platforming'' issue in interferometric astronomy.

stat.ME↗

arXiv2026

Automated Assignment and Prediction of Molecules in Astronomical Line Surveys Using Machine-Learning-Based Chemical Embeddings

Modern radio telescopes generate vast amounts of observational data, offering valuable insights into the molecular composition of interstellar sources. Identifying the molecules within these datasets typically involves time-consuming and labor-intensive manual analysis. This paper presents an automated method for assigning molecules in interstellar line surveys. The algorithm operates in two main stages. First, it automatically determines key parameters of the data, including excitation temperature, line width, and source velocity. Next, it assigns the observed spectral peaks by evaluating the spectroscopic match of the molecular candidates along with analyzing their chemical relevance to the interstellar source. The chemical relevance is determined by leveraging machine-learning-based molecular embedding techniques to analyze the regions of chemical space occupied by the observed species. Following the line assignment, this information is then used to generate new molecular candidates that occupy the same regions of chemical space. These newly generated species serve as promising targets for further investigation in the observational data. The algorithm was validated on spectral line surveys of the dark molecular cloud TMC-1 and the star-forming region IRAS 16293-2422B. In both cases, it identified at least 67 molecular species, accounting for over 90 percent of the analyzed line intensity, in 17 minutes or less while maintaining a high level of accuracy.

astro-ph.GA↗

arXiv2026

Exploring the Limits of Spectral Line Stacking in Spectral Line Data and Application Toward the Detection of Bulk $^{13}$C Enrichment of Aromatics in TMC-1

The formation history of polycyclic aromatic hydrocarbons (PAHs) in the interstellar medium remains a topic of active debate, with proposed mechanisms ranging from high-temperature stellar ejecta processes to low-temperature chemistry within molecular clouds. Recently, the identification of small PAHs in the cold, dark cloud TMC-1 has provided some circumstantial evidence of the latter. If these are formed in situ, their isotopic ratios, particularly $^{12}$C/$^{13}$C, should reflect the local, bulk material of the molecular cloud; in contrast, PAHs formed in the circumstellar envelopes of evolved stars may show enhanced $^{13}$C abundances. The expected radio signals of these $^{13}$C substituted species will be faint, and thus we conducted a detailed proof-of-concept analysis examining whether spectral line stacking and matched filtering techniques can robustly retrieve signal from multiple singly substituted $^{13}$C isotopologues in aggregate. We find that while retrieved signal decreases in the limit of spectral line confusion, false-positive detections are exceedingly improbable at the adopted 5$σ$ matched filter response detection threshold. We then demonstrate the technique on actual observational data of isotopologues of HC$_9$N toward TMC-1. Finally, we show using synthetic data that if laboratory rotational spectra of all singly substituted $^{13}$C isotopologues of cyanonaphthalene and cyanopyrene isomers existed, current observations of TMC-1 would be sensitive enough to discriminate between a local, bulk $^{12}$C/$^{13}$C ratio and one with an enhanced $^{13}$C abundance suggestive of inheritance.

astro-ph.GA↗

arXiv2026

First Detection of HC5N in a Class II Disk around TW Hya

Over the last decade of ALMA's operation the molecular inventory of protoplanetary disks has expanded rapidly, revealing a diverse set of nitrogen-bearing organics and carbon-chain molecules that trace both prebiotic chemistry and fundamental disk physics. Despite this progress, detections of larger species such as cyanopolyynes have remained limited, leaving larger carbon-chain chemistry in Class II disks largely unconstrained. Here, we report the first detection of HC5N toward the TW Hya protoplanetary disk, representing the largest cyanopolyyne identified to date in a Class II system. We derive a HC5N column density for two rotational transitions J = 41-40 and J = 37-36, N_T ~ 10^12 cm^-2 for assumed T_rot = 20-50 K and optically thin emission in LTE. We compare HC5N and HC3N formation mechanisms and analyze the HC3N/HC5N ratio. We use a chemical model to estimate the expected abundance and emitting layer of HC5N in a TW Hya-like disk. Although HC5N emission is spatially unresolved, measured column densities suggest an origin in the warm molecular layer where CN-based pathways are active. This detection extends the known carbon-chain chemistry in Class II disks and demonstrates that long cyanopolyynes can form and persist in planet-forming environments.

astro-ph.SR↗

arXiv2026

exoALMA XXII: A Two-dimensional Atlas of Deviations from Keplerian Disks

Protoplanetary disks are the birthplaces of planetary systems, and deviations from Keplerian rotation imprinted in disk gas kinematics serve as key tracers of physical processes and the presence of protoplanets within disks. Using the the CO (J=3-2) data from the exoALMA Large Program encompassing 15 disks, we constructed two-dimensional (2D) maps of centroid velocity, line width, and peak intensity, and extracted non-Keplerian deviations by subtracting smooth Keplerian models. This paper provides the first systematic and uniform overview of 2D gas substructures across the entire exoALMA sample. We find that all targets exhibit large-scale deviations from smooth Keplerian disks, displaying a variety of morphologies including spiral-like structures, arc- or ring-like features, and patterns indicative of variations in the emitting surface height. Non-axisymmetric spiral-arm features are detected or suggested in five disks (CQ Tau, MWC 758, HD 135344B, HD 34282, and SY Cha), and are preferentially found in Herbig Ae/Fe systems. In contrast, some other sources (J1852, PDS 66, and V4046 Sgr), despite exhibiting noticeable deviations, appear to be dynamically quieter. This 2D atlas suggests that kinematic substructures are ubiquitous in large ($\gtrsim$ 100 au) protoplanetary disks with ages of a few million years, based on the observations obtained with sufficient sensitivity at moderate-to-high spatial resolution of $\sim$20 au and high velocity resolution of $\sim$0.1 km s$^{-1}$.

astro-ph.EP↗

arXiv2026

exoALMA XXI: The Morphology and Dynamics of Vertical Flows

Vertical gas flows, such as winds and meridional circulations, are natural outcomes of protoplanetary disk processes and play a critical role in the earliest stages of planet formation. We analyze vertical gas motions in 14 disks as part of the exoALMA Large Program, focusing on the 12CO J=3-2 and 13CO J=3-2 emission lines. Using discminer to model the Keplerian velocity field, we extract line-of-sight velocity residuals and measure the radial and vertical components of the gas motion. Vertical motions are detected in most disks. Two types of patterns emerge: (1) oscillatory up/down flows, likely linked to instabilities, and (2) transitions from downward to upward motions that we interpret as the base of a disk wind. In most cases, the velocity amplitudes are of a few tens of m/s. Two disks, however, MWC758 and CQ Tau, show two spiral velocity features in their residual maps, red- and blue-shifted, which we interpret as vertical velocities reaching up to 350 m/s (0.7 Cs), consistent with gas motion in eccentric disks. Fast upward motions (up to 500 m/s; 1.8 Cs) is also detected in the outer disk of MWC758. Synthetic observations from (magneto)hydrodynamic simulations validate the reliability of our method. Although strong molecular winds appear to be relatively rare in 12CO and 13CO, our study shows that, when traced by deep high spectral resolution line data, protoplanetary disks exhibit ubiquitous vertical flows. However, their overall velocity structure is highly complex, preventing to identify a coherent, dominant physical mechanism driving the vertical motions across all disks, thus requiring further theoretical investigation.

astro-ph.EP↗

arXiv2026

exoALMA XX: Tomographic Detection of Embedded Planets in Protoplanetary Disks

The exoALMA Large Program has revealed a wealth of substructures in the dust and molecular line emission of several protoplanetary discs, suggesting that planet formation may unfold within highly dynamic environments. Using synthetic observations of planet-disc interactions and disc instabilities, we demonstrate how the origin of these substructures can be investigated through a tomographic study of molecular lines, extending the scope of the analysis beyond line-centroid kinematics alone. Our results indicate that with only a few hours of ALMA integration at moderate angular resolution ($0.15''-0.30''$), it is possible to identify the key signatures driven by planets more massive than 0.1% of the stellar mass. These signatures manifest not only as deviations from Keplerian motion but also as localized line broadening, enabling accurate constraints on the orbital radius and azimuthal location of the planets. We further show that a diagnostic based on line skewness in spectrally resolved observations can help distinguish between planetary and instability-driven signatures, owing to the distinct degrees of velocity coherence associated with each mechanism. Finally, we apply this tomographic analysis to exoALMA CO line data for the discs of HD 135344B and MWC 758. In HD 135344B, we identify strongly localized velocity and line-width perturbations, suggesting the possibility of three massive planets embedded in the disc: one at $R=95$ au, exterior to the continuum substructures, and two within dust gaps at $R=41$ au and $R=73$ au. For MWC 758, the dominance of vertical-velocity spirals over localized signatures is consistent with predictions from models of moderate disc eccentricities or warps, potentially induced by a substellar companion in the inner regions of the system.

astro-ph.EP↗

arXiv2025

Benchmarking Dimensionality Reduction Methods for High-Dimensional ALMA Image Cubes

High-dimensional astronomical data cubes provide a wealth of spectral and structural information that can be used to study astrophysical and chemical processes. The complexity and sheer size of these datasets pose significant challenges in their efficient analysis, visualization, and interpretation. In specific astronomical use cases, a number of dimensionality reduction techniques, including traditional linear (e.g. principal component analysis) and modern nonlinear methods (e.g. convolutional autoencoders) have been used to tackle this high-dimensional problem. In this study, we assess the strengths, weaknesses, and nuances of various methods in their ability to capture and preserve astronomically-relevant features at lower dimensions. We provide recommendations to guide users in identifying and incorporating these treatments to their data, and provide insights into the computational scalability of these methods for observatory level data processing. This benchmark study uses publicly available archival ALMA data from a diverse sampling of source morphologies and observing setups to assess the performance and trade-offs between computational cost, image reconstruction accuracy, and scalability. Finally, we discuss the generalizability of these techniques in regard to data segmentation and labeling algorithms and how they can be exploited for advanced data product generation and streamlined archival analysis as we prepare to enter the era of the ALMA Wideband Sensitivity Upgrade.

astro-ph.IM↗

arXiv2025

Puffed-up Inner Rings and Razor-thin Outer Rings in Structured Protoplanetary Disks

The vertical distribution of pebbles in protoplanetary disks is a fundamental property influencing planet formation, from dust aggregation to the assembly of planetary cores. In the outer region of protoplanetary disks, the intensity of the optically thin but geometrically thick dust ring decreases along the minor axis due to reduced line-of-sight optical depth. Multi-ring disks thus provide an excellent opportunity to study the radial variation of the vertical properties of dust. We investigate the vertical dust distribution in 6 protoplanetary disks with resolved double rings, using high-resolution ALMA Band 6 continuum observations. By modeling the azimuthal intensity variations in these rings, we constrain the dust scale heights for each ring. Our results reveal a dichotomy: inner rings exhibit puffed-up dust layers with heights comparable to the gas scale height, while outer rings are significantly more settled, with dust scale heights less than 20\% of the gas scale height. This suggests a radial dependence in dust settling efficiency within the disks, potentially driven by localized planetary interactions or the global radial dependence of the Vertical Shear Instability (VSI). We discuss the implications of these findings for dust trapping, planet formation, and protoplanetary disk evolution. Our work highlights the importance of vertical dust distribution in understanding the early stages of planet formation and suggests that outer ($>80$~au), settled rings are preferred sites for planet formation over inner ($<80$~au), turbulent rings.

astro-ph.EP↗

arXiv2025

The Molecular Inventory of TMC-1 with GOTHAM Observations

Spectral line surveys of the Taurus Molecular Cloud-1 (TMC-1) have led to the detection of more than 100 new molecular species, making it the most prolific source of interstellar molecular discoveries. These wide-band, high-sensitivity line surveys have been enabled by advances in telescope and receiver technology, particularly at centimeter and millimeter wavelengths. In this work, we present a statistical analysis of the molecular inventory of TMC-1 as probed by the GOTHAM large program survey from 3.9 to 36.4 GHz. To fully unlock the potential of the $\sim$29 GHz spectral bandwidth, we developed an automated pipeline for data reduction and calibration. We applied a Bayesian approach with Markov-Chain Monte Carlo fitting to the calibrated spectra and constrained column densities for 102 molecular species detected in TMC-1, including 75 main isotopic species, 20 carbon-13 substituted species, and seven deuterium-substituted species. This list of the detected gas-phase molecules is populated by unsaturated hydrocarbons, in stark contrast to the oxygen-rich organics found in sublimated ices around protostars. Of note, ten individual aromatic molecules were identified in the GOTHAM observations, contributing 0.011% of the gas-phase carbon budget probed by detected molecules when including CO and 6% when excluding CO. This work provides a reference set of observed gas-phase molecular abundances for interstellar clouds, offering a new benchmark for astrochemical theoretical models.

astro-ph.GA↗

arXiv2025

ExoALMA XIII. gas masses from N2H+ and C18O: a comparison of protoplanetary gas disk mass measurement techniques

The gas masses of protoplanetary disks are important but elusive quantities. In this work we present new ALMA observations of N2H+ (3-2) for 11 exoALMA disks. N2H+ is a molecule sensitive to CO freeze-out and has recently been shown to significantly improve the accuracy of gas masses estimated from CO line emission. We combine these new observations with archival N2H+ and CO isotopologue observations to measure gas masses for 19 disks, predominantly from the exoALMA Large program. For 15 of these disks the gas mass has also been measured using gas rotation curves. We show that the CO + N2H+ line emission-based gas masses typically agree with the kinematically measured ones within a factor 3 (1-2σ). Gas disk masses from CO + N2H+ are on average a factor 2.3(+0.7,-1.0) x lower than the kinematic disk masses, which could suggest slightly lower N2 abundances and/or lower midplane ionization rates than typically assumed. Herbig disks are found to have ISM level CO gas abundances based on their CO and N2H+ fluxes, which sets them apart from T-Tauri disks where abundances are typically 3-30x lower. The agreement between CO + N2H+ -based and kinematically measured gas masses is promising and shows that multi-molecule line fluxes are a robust tool to accurately measure disk masses at least for extended disks.

astro-ph.EP↗

arXiv2025

exoALMA XIV. Gas Surface Densities in the RX J1604.3-2130 A Disk from Pressure-broadened CO Line Wings

The gas surface density is one of the most relevant physical quantities in protoplanetary disks. However, its precise measurement remains highly challenging due to the lack of a direct tracer. In this study, we report the spatially-resolved detection of pressure-broadened line wings in the CO $J=3-2$ line in the RX J1604.3-2130 A transition disk as part of the exoALMA large program. Since pressure-broadened line wings are sensitive to the total gas volume density, we robustly constrain the radial dependence of the gas surface density and midplane pressure in the region located $50-110$ au from the central star, which encompasses the dust ring of the system. The peak radius of the midplane pressure profile matches the dust ring radial location, directly proving radial dust trapping at a gas pressure maximum. The peak gas surface density is $18-44\ {\rm g\ cm^{-2}}$} and decreases at radii interior to and exterior of the dust ring. A comparison of the gas and dust surface densities suggests that the disk turbulence is as low as $α_{\rm turb} \sim 2\times10^{-4}$. Despite dust trapping, the gas-to-dust surface density ratio at the ring peak is { $70-400$}, which implies already-formed protoplanets and/or less efficient dust trapping. The gas surface density drop at radii interior to the ring is consistent with a gas gap induced by a Jupiter-mass planet. The total gas mass within $50 < r < 110$ au is estimated to be $\sim 0.05-0.1\ M_\odot$ ($50-100\ {M_{\rm Jup}}$), suggesting that planetary system formation is possible.

astro-ph.EP↗

arXiv2025

exoALMA. XVI. Predicting Signatures of Large-scale Turbulence in Protoplanetary Disks

Turbulent gas motions drive planet formation and protoplanetary disk evolution. However, empirical constraints on turbulence are scarce, halting our understanding of its nature. Resolving signatures of the large-scale perturbations driven by disk instabilities may reveal clues on the origin of turbulence in the outer regions of planet-forming disks. We aim to predict the observational signatures of such large-scale flows, as they would appear in high-resolution Atacama Large Millimeter/submillimeter Array observations of CO rotational lines, such as those conducted by the exoALMA Large Program. Post-processing 3D numerical simulations, we explored the observational signatures produced by three candidate (magneto-)hydrodynamical instabilities to operate in the outer regions of protoplanetary disks: the vertical shear instability (VSI), the magneto-rotational instability (MRI), and the gravitational instability (GI). We found that exoALMA-quality observations should capture signatures of the large-scale motions induced by these instabilities. Mainly, flows with ring, arc, and spiral morphologies are apparent in the residuals of synthetic velocity centroid maps. A qualitative comparison between our predictions and the perturbations recovered from exoALMA data suggests the presence of two laminar disks and a scarcity of ring- and arc-like VSI signatures within the sample. Spiral features produced by the MRI or the GI are still plausible in explaining observed disk perturbations. Supporting these scenarios requires further methodically comparing the predicted perturbations and the observed disks' complex dynamic structure.

astro-ph.EP↗

arXiv2025

exoALMA XI: ALMA Observations and Hydrodynamic Models of LkCa 15: Implications for Planetary Mass Companions in the Dust Continuum Cavity

In the past decade, the Atacama Large Millimeter/submillimeter Array (ALMA) has revealed a plethora of substructures in the disks surrounding young stars. These substructures have several proposed formation mechanisms, with one leading theory being the interaction between the disk and newly formed planets. In this Letter, we present high angular resolution ALMA observations of LkCa~15's disk that reveal a striking difference in dust and CO emission morphology. The dust continuum emission shows a ring-like structure characterized by a dust-depleted inner region of $\sim$40 au in radius. Conversely, the CO emission is radially smoother and shows no sign of gas depletion within the dust cavity. We compare the observations with models for the disk-planet interaction, including radiative transfer calculation in the dust and CO emission. This source is particularly interesting as the presence of massive planets within the dust cavity has been suggested based on previous NIR observations. We find that the level of CO emission observed within the dust cavity is inconsistent with the presence of planets more massive than Jupiter orbiting between 10-40 au. Instead, we argue that the LkCa~15 innermost dust cavity might be created either by a chain of low-mass planets, or by other processes that do not require the presence of planets.

astro-ph.EP↗

arXiv2025

exoALMA II: Data Calibration and Imaging Pipeline

The exoALMA Large Program was designed to search for subtle kinematic deviations from Keplerian motion, indicative of embedded planets, in high angular and spectral resolution Band 7 observations of $^{12}$CO, $^{13}$CO and CS emission from protoplanetary disks. This paper summarizes the calibration and imaging pipelines used by the exoALMA collaboration. With sources ranging in diameter from 2.4" to 13.8" when probed by $^{12}$CO, multiple antennae configurations were required to maximally recover all spatial information (including the ACA for 7 sources). Combining these datasets warranted particular care in their alignment during calibration and prior to imaging, so as not to introduce spurious features that might resemble the kinematic deviations being investigated. Phase decoherence was found in several datasets, which was corrected by an iterative self-calibration procedure, and we explored the effects of the order of operations of spatial alignment, flux scaling, and self-calibration. A number of different imaging sets were produced for the continuum and line emission, employing an iterative masking procedure that minimizes bias due to non-Keplerian motions in the disk.

astro-ph.EP↗

arXiv2025

exoALMA. VI. Rotating under Pressure: Rotation curves, azimuthal velocity substructures, and pressure variations

The bulk motion of the gas in protoplanetary disks around newborn stars is nearly Keplerian. By leveraging the high angular and spectral resolution of ALMA, we can detect small-scale velocity perturbations in molecular line observations caused by local gas pressure variations in the disk, possibly induced by embedded protoplanets. This paper presents the azimuthally averaged rotational velocity and its deviations from Keplerian rotation ($δ\upsilon_ϕ$) for the exoALMA sample, as measured in the $^{12}$CO and $^{13}$CO emission lines. The rotation signatures show evidence for vertically stratified disks, in which $^{13}$CO rotates faster than $^{12}$CO due to a distinct thermal gas pressure gradient at their emitting heights. We find $δ\upsilon_ϕ$-substructures in the sample on both small ($\sim$10 au) and large ($\sim$100 au) radial scales, reaching deviations up to 15% from background Keplerian velocity in the most extreme cases. More than 75% of the rings and 80% of the gaps in the dust continuum emission resolved in $δ\upsilon_ϕ$ are co-located with gas pressure maxima and minima, respectively. Additionally, gas pressure substructures are observed far beyond the dust continuum emission. For the first time, we determined the gas pressure derivative at the midplane from observations and found it to align well with the dust substructures within the given uncertainties. Based on our findings, we conclude that gas pressure variations are likely the dominant mechanism for ring and gap formation in the dust continuum.

astro-ph.EP↗

arXiv2025

exoALMA. XVII. Characterizing the Gas Dynamics around Dust Asymmetries

The key planet-formation processes in protoplanetary disks remain an active matter of research. One promising mechanism to radially and azimuthally trap millimeter-emitting dust grains, enabling them to concentrate and grow into planetesimals, is anticyclonic vortices. While dust observations have revealed crescent structures in several disks, observations of their kinematic signatures are still lacking. Studying the gas dynamics is, however, essential to confirm the presence of a vortex and understand its dust trapping properties. In this work, we make use of the high-resolution and sensitivity observations conducted by the exoALMA large program to search for such signatures in the $^{12}$CO and $^{13}$CO molecular line emission of four disks with azimuthal dust asymmetries: HD 135344B, HD 143006, HD 34282, and MWC 758. To assess the vortex features, we constructed an analytical vortex model and performed hydrodynamical simulations. For the latter, we assumed two scenarios: a vortex triggered at the edge of a dead zone and of a gap created by a massive embedded planet. These models reveal a complex kinematical morphology of the vortex. When compared to the data, we find that none of the sources show a distinctive vortex signature around the dust crescents in the kinematics.

astro-ph.EP↗

arXiv2025

exoALMA XV: Interpreting the height of CO emission layer

The availability of exquisite data and the development of new analysis techniques have enabled the study of emitting heights in proto-planetary disks. In this paper we introduce a simple model linking the emitting height of CO to the disk surface density and temperature structure. We then apply the model to measurements of the emitting height and disk temperature conducted as part of exoALMA, integrated with additional legacy measurements from the MAPS Large Programme, to derive CO column densities and surface density profiles (assuming a CO abundance) for a total of 14 disks. A unique feature of the method we introduce to measure surface densities is that it can be applied to optically thick observations, rather than optically thin as conventionally done. While we use our method on a sample of well studied disks where temperature structures have been derived using two emission lines, we show that reasonably accurate estimates can be obtained also when only one molecular transition is available. With our method we obtain independent constraints from $^{12}$CO and $^{13}$CO and we find they are in general good agreement using the standard $^{12}$C/$^{13}$C isotopic ratio. The masses derived from our method are systematically lower compared with the values derived dynamically from the rotation curve if using an ISM CO abundance, implying that CO is depleted by a median factor $\sim$20 with respect to the ISM value, in line with other works that find that CO is depleted in proto-planetary disks.

astro-ph.EP↗