The United States COVID-19 Forecast Hub dataset

Academic researchers, government agencies, industry groups, and individuals have produced forecasts at an unprecedented scale during the COVID-19 pandemic. To leverage these forecasts, the United States Centers for Disease Control and Prevention (CDC) partnered with an academic research lab at the University of Massachusetts Amherst to create the US COVID-19 Forecast Hub. Launched in April 2020, the Forecast Hub is a dataset with point and probabilistic forecasts of incident cases, incident hospitalizations, incident deaths, and cumulative deaths due to COVID-19 at county, state, and national, levels in the United States. Included forecasts represent a variety of modeling approaches, data sources, and assumptions regarding the spread of COVID-19. The goal of this dataset is to establish a standardized and comparable set of short-term forecasts from modeling teams. These data can be used to develop ensemble models, communicate forecasts to the public, create visualizations, compare models, and inform policies regarding COVID-19 mitigation. These open-source data are available via download from GitHub, through an online API, and through R packages

charlesll/Spectra.jl: v1.0.0

<h2>What's Changed</h2> <ul> <li>Create CITATION.bib by @asinghvi17 in https://github.com/charlesll/Spectra.jl/pull/12</li> <li>Install TagBot as a GitHub Action by @JuliaTagBot in https://github.com/charlesll/Spectra.jl/pull/13</li> <li>Update README.md by @besselfunct in https://github.com/charlesll/Spectra.jl/pull/18</li> </ul> <h2>New Contributors</h2> <ul> <li>@asinghvi17 made their first contribution in https://github.com/charlesll/Spectra.jl/pull/12</li> <li>@JuliaTagBot made their first contribution in https://github.com/charlesll/Spectra.jl/pull/13</li> <li>@besselfunct made their first contribution in https://github.com/charlesll/Spectra.jl/pull/18</li> </ul> <p><strong>Full Changelog</strong>: https://github.com/charlesll/Spectra.jl/compare/v0.4.2...v1.0.0</p&gt

Chaotic markers in dynamic diffraction

In a dynamic far-field diffraction experiment, we calculate the largest Lyapunov exponent of a time series obtained from the optical fluctuations in a dynamic diffraction pattern. The time series is used to characterize the locomotory predictability of an oversampled microscopic species. We use a live nematode, Caenorhabditis elegans, as a model organism to demonstrate our method. The time series is derived from the intensity at one point in the diffraction pattern. This single time series displays chaotic markers in the locomotion of the Caenorhabditis elegans by reconstructing the multidimensional phase space. The average largest Lyapunov exponent (base e) associated with the dynamic diffraction of 10 adult wildtype (N2) Caenorhabditis elegans is 1.27 ± 0.03 s − 1 .</jats:p

JuliaDynamics/RecurrenceAnalysis.jl: v2.0.6

&lt;h2&gt;RecurrenceAnalysis v2.0.6&lt;/h2&gt; &lt;p&gt;&lt;a href="https://github.com/JuliaDynamics/RecurrenceAnalysis.jl/compare/v2.0.5...v2.0.6"&gt;Diff since v2.0.5&lt;/a&gt;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Merged pull requests:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;CompatHelper: add new compat entry for DelimitedFiles at version 1, (keep existing compat) (#153) (@github-actions[bot])&lt;/li&gt; &lt;li&gt;Bump actions/checkout from 3 to 4 (#155) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Bump styfle/cancel-workflow-action from 0.11.0 to 0.12.0 (#156) (@dependabot[bot])&lt;/li&gt; &lt;/ul&gt; &lt;p&gt;&lt;strong&gt;Closed issues:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Function for windowed rqa is broken (#149)&lt;/li&gt; &lt;li&gt;Diagonal structures don't work with CrossRecurrenceMatrix (#152)&lt;/li&gt; &lt;/ul&gt

JuliaDynamics/DynamicalSystems.jl: v1.2.1

A Julia software library for chaos and nonlinear dynamic

JuliaDynamics/ChaosTools.jl: v3.1.2

&lt;h2&gt;ChaosTools v3.1.2&lt;/h2&gt; &lt;p&gt;&lt;a href="https://github.com/JuliaDynamics/ChaosTools.jl/compare/v3.1.1...v3.1.2"&gt;Diff since v3.1.1&lt;/a&gt;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Merged pull requests:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Bump actions/checkout from 3 to 4 (#313) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Bump styfle/cancel-workflow-action from 0.11.0 to 0.12.0 (#314) (@dependabot[bot])&lt;/li&gt; &lt;/ul&gt

SpeedyWeather/SpeedyWeather.jl: v0.10.0

&lt;h2&gt;SpeedyWeather v0.10.0&lt;/h2&gt; &lt;p&gt;&lt;a href="https://github.com/SpeedyWeather/SpeedyWeather.jl/compare/v0.9.0...v0.10.0"&gt;Diff since v0.9.0&lt;/a&gt;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Merged pull requests:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;JOSS paper (#387) (@milankl)&lt;/li&gt; &lt;li&gt;Scheduler for callbacks (#488) (@milankl)&lt;/li&gt; &lt;li&gt;Zenodo DOI added (#489) (@milankl)&lt;/li&gt; &lt;li&gt;Schedule bug with millisecond time steps (#490) (@milankl)&lt;/li&gt; &lt;li&gt;Update README.md with particle advection video (#491) (@milankl)&lt;/li&gt; &lt;li&gt;Field trees (#492) (@milankl)&lt;/li&gt; &lt;li&gt;Export &lt;code&gt;coriolis&lt;/code&gt;, unscale diagnostics at finish, add! callbacks directly to model too (#494) (@milankl)&lt;/li&gt; &lt;li&gt;Trees with summarysize (#495) (@milankl)&lt;/li&gt; &lt;li&gt;ConstantOceanClimatology, AquaPlanet (#496) (@milankl)&lt;/li&gt; &lt;li&gt;Document typical online analysis steps (#497) (@milankl)&lt;/li&gt; &lt;li&gt;Convection with work arrays for thread safety (#498) (@milankl)&lt;/li&gt; &lt;li&gt;Bulk Richardson-based vertical diffusion (#499) (@milankl)&lt;/li&gt; &lt;li&gt;LowerTriangularMatrix copyto! range bug (#501) (@milankl)&lt;/li&gt; &lt;li&gt;Jeevanjee longwave radiation (#502) (@milankl)&lt;/li&gt; &lt;li&gt;LowerTriangularMatrices: N-dimensional and GPU ready (#503) (@maximilian-gelbrecht)&lt;/li&gt; &lt;li&gt;Add to analysis doc (from new branch) (#505) (@milankl)&lt;/li&gt; &lt;li&gt;Broadcasting for RingGrids (#506) (@milankl)&lt;/li&gt; &lt;li&gt;Benchmark overview (#509) (@milankl)&lt;/li&gt; &lt;li&gt;Large-scale condensation documented (#510) (@milankl)&lt;/li&gt; &lt;li&gt;Add Makie extension (#511) (@milankl)&lt;/li&gt; &lt;li&gt;Convection documentation (#512) (@milankl)&lt;/li&gt; &lt;li&gt;Radiation documentation (#513) (@milankl)&lt;/li&gt; &lt;li&gt;Held-Suarez example, NoTypes for surface fluxes (#514) (@milankl)&lt;/li&gt; &lt;li&gt;Bump julia-actions/setup-julia from 1 to 2 (#516) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Remove PythonPlot dependency of docs (#517) (@milankl)&lt;/li&gt; &lt;li&gt;Model construction without type constraints (#519) (@milankl)&lt;/li&gt; &lt;li&gt;AbstractGridArray N-dimensional and GPU ready (#520) (@milankl)&lt;/li&gt; &lt;li&gt;Exports more gradient operators from SpeedyTransforms (#523) (@milankl)&lt;/li&gt; &lt;li&gt;Change weight in ZonalJet() (#524) (@miniufo)&lt;/li&gt; &lt;li&gt;Orography documented (#526) (@milankl)&lt;/li&gt; &lt;li&gt;Particle advection time stepping corrected (#528) (@milankl)&lt;/li&gt; &lt;li&gt;Humidity video for readme (#529) (@milankl)&lt;/li&gt; &lt;li&gt;Surface flux documentation (#530) (@milankl)&lt;/li&gt; &lt;li&gt;Add explicit arithmetics again to LowerTriangularArrays (#531) (@maximilian-gelbrecht)&lt;/li&gt; &lt;li&gt;Vertical diffusion documentation (#532) (@milankl)&lt;/li&gt; &lt;li&gt;Ocean model documentation (#533) (@milankl)&lt;/li&gt; &lt;li&gt;Parameterization structure documented (#534) (@milankl)&lt;/li&gt; &lt;li&gt;Bump Makie compat (#535) (@asinghvi17)&lt;/li&gt; &lt;li&gt;Docs clarification: Parameterization for primitive models only (#536) (@milankl)&lt;/li&gt; &lt;li&gt;Restructure docs following #443 (#537) (@milankl)&lt;/li&gt; &lt;li&gt;Scale orography and smooth fraction of resolved wavenumbers (#538) (@milankl)&lt;/li&gt; &lt;li&gt;StochasticStirring example with CairoMakie (#539) (@milankl)&lt;/li&gt; &lt;li&gt;Horizontal diffusion not adaptive (#540) (@milankl)&lt;/li&gt; &lt;li&gt;Large-scale condensation at previous time step (#541) (@milankl)&lt;/li&gt; &lt;li&gt;Surface fluxes calculated from previous time step (#542) (@milankl)&lt;/li&gt; &lt;li&gt;bump to v0.10 (#545) (@milankl)&lt;/li&gt; &lt;/ul&gt; &lt;p&gt;&lt;strong&gt;Closed issues:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Physical parameterizations: inconsistencies between speedy.f90 and the Speedy Documentation (#126)&lt;/li&gt; &lt;li&gt;Progress towards primitive equations (#192)&lt;/li&gt; &lt;li&gt;Divergence of (hu, hv, h) (#372)&lt;/li&gt; &lt;li&gt;Initial conditions from PDEArena (#377)&lt;/li&gt; &lt;li&gt;Conserved quantity verifying (#400)&lt;/li&gt; &lt;li&gt;shallow-water case for a global ocean (#412)&lt;/li&gt; &lt;li&gt;[JOSS review] Nat's Review of SpeedyWeather.jl (#443)&lt;/li&gt; &lt;li&gt;[JOSS Review] questions + suggestions (#446)&lt;/li&gt; &lt;li&gt;[JOSS review] Zenodo archival (#448)&lt;/li&gt; &lt;li&gt;Another simple radiation scheme (#456)&lt;/li&gt; &lt;li&gt;Automatic performance testing (#464)&lt;/li&gt; &lt;li&gt;JOSS review: text comments (#480)&lt;/li&gt; &lt;li&gt;Replace &lt;code&gt;PythonPlot&lt;/code&gt; with a Julia-based plotting library in Docs (#482)&lt;/li&gt; &lt;li&gt;Verifying conserved quantities (#500)&lt;/li&gt; &lt;li&gt;PrimitiveDry and WetModel generation on Julia v1.9 hangs (#508)&lt;/li&gt; &lt;li&gt;The PrimitiveWetModel example fails (#515)&lt;/li&gt; &lt;li&gt;unbalanced initial condition for Galewsky Jet (#518)&lt;/li&gt; &lt;li&gt;Time stepping of particle tracking (#527)&lt;/li&gt; &lt;/ul&gt

yeesian/ArchGDAL.jl: v0.10.2

&lt;h2&gt;ArchGDAL v0.10.2&lt;/h2&gt; &lt;p&gt;&lt;a href="https://github.com/yeesian/ArchGDAL.jl/compare/v0.10.1...v0.10.2"&gt;Diff since v0.10.1&lt;/a&gt;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Merged pull requests:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;faster getpoint (#369) (@rafaqz)&lt;/li&gt; &lt;li&gt;Parse GeoFormatTypes EPSG with 2 codes (#374) (@evetion)&lt;/li&gt; &lt;li&gt;fix inference on GI.getcoord (#379) (@rafaqz)&lt;/li&gt; &lt;li&gt;factor out layer copying into its own function (#382) (@maxfreu)&lt;/li&gt; &lt;li&gt;Create dependabot.yml (#383) (@yeesian)&lt;/li&gt; &lt;li&gt;Bump actions/cache from 1 to 3 (#384) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Bump codecov/codecov-action from 1 to 3 (#385) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Bump actions/checkout from 2 to 3 (#386) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Bump peter-evans/create-pull-request from 3 to 5 (#387) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;add support for converting to WKT to EPSG (#391) (@alex-s-gardner)&lt;/li&gt; &lt;li&gt;CompatHelper: bump compat for ImageCore to 0.10, (keep existing compat) (#392) (@github-actions[bot])&lt;/li&gt; &lt;li&gt;make CompatHelper trigger tests (#393) (@visr)&lt;/li&gt; &lt;li&gt;Bump actions/checkout from 3 to 4 (#394) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;fix tests with GDAL 3.7.2 (#395) (@visr)&lt;/li&gt; &lt;li&gt;CompatHelper: bump compat for CEnum to 0.5, (keep existing compat) (#396) (@github-actions[bot])&lt;/li&gt; &lt;li&gt;Fix typo in docstring link (#398) (@evetion)&lt;/li&gt; &lt;li&gt;Implement GeoInterface.crs (#405) (@evetion)&lt;/li&gt; &lt;/ul&gt; &lt;p&gt;&lt;strong&gt;Closed issues:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Failing tests on 1.9 (#285)&lt;/li&gt; &lt;li&gt;Tables.jl interface doesn't provide all columns of dataset (#332)&lt;/li&gt; &lt;li&gt;GDAL.gdalwarp fails: Point outside of projection domain (#373)&lt;/li&gt; &lt;li&gt;Failures on nightly (#375)&lt;/li&gt; &lt;li&gt;Simple conversion to Meshes.jl (#378)&lt;/li&gt; &lt;li&gt;unsafe_gdalwarp not working as expected (#397)&lt;/li&gt; &lt;/ul&gt

yeesian/ArchGDAL.jl: v0.10.4

&lt;h2&gt;ArchGDAL v0.10.4&lt;/h2&gt; &lt;p&gt;&lt;a href="https://github.com/yeesian/ArchGDAL.jl/compare/v0.10.3...v0.10.4"&gt;Diff since v0.10.3&lt;/a&gt;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Merged pull requests:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;bump GDAL version to 1.7 (#426) (@rafaqz)&lt;/li&gt; &lt;/ul&gt

yeesian/ArchGDAL.jl: v0.10.3

&lt;h2&gt;ArchGDAL v0.10.3&lt;/h2&gt; &lt;p&gt;&lt;a href="https://github.com/yeesian/ArchGDAL.jl/compare/v0.10.2...v0.10.3"&gt;Diff since v0.10.2&lt;/a&gt;&lt;/p&gt; &lt;p&gt;&lt;strong&gt;Merged pull requests:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Add GeoInterfaceMakie as a weak dependency (#404) (@felixcremer)&lt;/li&gt; &lt;li&gt;Bump actions/cache from 3 to 4 (#406) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Update spatialreference.org URL to fix tests (#407) (@visr)&lt;/li&gt; &lt;li&gt;Make buffer for &lt;code&gt;read!&lt;/code&gt; an AbstractArray (#411) (@felixcremer)&lt;/li&gt; &lt;li&gt;Bump codecov/codecov-action from 3 to 4 (#413) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Bump peter-evans/create-pull-request from 5 to 6 (#414) (@dependabot[bot])&lt;/li&gt; &lt;li&gt;Forward gdalinfo for RasterDataset (#415) (@felixcremer)&lt;/li&gt; &lt;li&gt;CompatHelper: bump compat for DiskArrays to 0.4, (keep existing compat) (#417) (@github-actions[bot])&lt;/li&gt; &lt;li&gt;add GDT_Int8 data type (#423) (@tiemvanderdeure)&lt;/li&gt; &lt;li&gt;Bump Makie compat + patch version (#424) (@asinghvi17)&lt;/li&gt; &lt;/ul&gt; &lt;p&gt;&lt;strong&gt;Closed issues:&lt;/strong&gt;&lt;/p&gt; &lt;ul&gt; &lt;li&gt;Add dependency to GeoInterfaceMakie.jl (#376)&lt;/li&gt; &lt;li&gt;Add support for converting GeoReferenceTypes to EPSG (#390)&lt;/li&gt; &lt;li&gt;Type of buffer in &lt;code&gt;read!&lt;/code&gt; is too restricted (#410)&lt;/li&gt; &lt;/ul&gt