cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5281/zenodo.10650871
title: Data of Newton method of "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences"

description: This deposit contains the datasets generated by the Newton method for the paper:



J. Schulze, J. Saak: "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences".


Download the individual files and store them inside the directory data/newton-adi/.

The file names are structured as follows.



Rail5177: Steel Profile benchmark problem of dimension 5177

adi_initprev=true|false: whether the initial ADI iterate was set to the solution of the previous Newton step (or zero)

adi_kwargs=...: keyword arguments passed to ADI method



maxiters=1000: maximum number of iterations

shifts=...: shift strategy



newton_kwargs=...: keyword arguments passed to Newton method



inexact=true|false: whether to use inexact Newton method

inexact_hybrid=true|false: whether to switch back to classical Newton method in later iterations (only present if inexact=true)

linesearch=true|false: whether to employ line search

reltol=1e-10: relative tolerance to reason about convergence



β=1000: scaling of the quadratic term in the ARE

.jld2: file suffix. All file have been generated with JLD2.jl version 0.4.38


Load the dataset via using JLD2 and file = load(FILENAME). This will yield a dictionary having the following entries:



file["newton_metrics"]: data frame containing execution metrics of Newton iterations

file["adi_metrics"]: data frame containing execution metrocs of ADI iterations of all Newton iterations

file["timer"]: isolated runtime metrics generated with TimerOutputs.jl version 0.5.23

file["timer_metrics"]: runtime metrics of seperate run with additional data observers enabled

file["config"]: internal configuration object that led to this dataset (information also embedded in file name)

file["failed"]: Boolean on whether configuration has failed


All data frames were generated with DataFrames.jl version 1.6.1 and have their columns documented using metadata.

Generating this dataset took ~3h and consumed ~0.25kWh of electricity.
DOI: 10.5281/zenodo.10650872
title: Data of Newton method of "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences"

description: This deposit contains the datasets generated by the Newton method for the paper:



J. Schulze, J. Saak: "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences".


Download the individual files and store them inside the directory data/newton-adi/.

The file names are structured as follows.



Rail5177: Steel Profile benchmark problem of dimension 5177

adi_initprev=true|false: whether the initial ADI iterate was set to the solution of the previous Newton step (or zero)

adi_kwargs=...: keyword arguments passed to ADI method



maxiters=1000: maximum number of iterations

shifts=...: shift strategy



newton_kwargs=...: keyword arguments passed to Newton method



inexact=true|false: whether to use inexact Newton method

inexact_hybrid=true|false: whether to switch back to classical Newton method in later iterations (only present if inexact=true)

linesearch=true|false: whether to employ line search

reltol=1e-10: relative tolerance to reason about convergence



β=1000: scaling of the quadratic term in the ARE

.jld2: file suffix. All file have been generated with JLD2.jl version 0.4.38


Load the dataset via using JLD2 and file = load(FILENAME). This will yield a dictionary having the following entries:



file["newton_metrics"]: data frame containing execution metrics of Newton iterations

file["adi_metrics"]: data frame containing execution metrocs of ADI iterations of all Newton iterations

file["timer"]: isolated runtime metrics generated with TimerOutputs.jl version 0.5.23

file["timer_metrics"]: runtime metrics of seperate run with additional data observers enabled

file["config"]: internal configuration object that led to this dataset (information also embedded in file name)

file["failed"]: Boolean on whether configuration has failed


All data frames were generated with DataFrames.jl version 1.6.1 and have their columns documented using metadata.

Generating this dataset took ~3h and consumed ~0.25kWh of electricity.
DOI: 10.5281/zenodo.10651123
title: Data of Rosenbrock method of "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences"

description: This deposit contains the datasets generated by the Rosenbrock method for the paper:



J. Schulze, J. Saak: "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences".


Download the individual files and store them inside the directory data/rosenbrock/.

The file names are structured as follows.



Rail5177: Steel Profile benchmark problem of dimension 5177

adi_initprev=true|false: whether the initial ADI iterate was set to the solution at the previous time step (or zero)

adi_kwargs=...: keyword arguments passed to ADI method



maxiters=200: maximum number of iterations

reltol=1e-10: relative tolerance to reason about convergence

shifts=...: shift strategy



nsteps=45|150: number of Rosenbrock steps

tspan=(4500.0, 0.0): global time span of DRE

.jld2: file suffix. All file have been generated with JLD2.jl version 0.4.38


Load the dataset via using JLD2 and file = load(FILENAME). This will yield a dictionary having the following entries:



file["rosenbrock_metrics"]: data frame containing execution metrics of Rosenbrock iterations

file["adi_metrics"]: data frame containing execution metrocs of ADI iterations of all Rosenbrock iterations

file["timer"]: isolated runtime metrics generated with TimerOutputs.jl version 0.5.23

file["timer_metrics"]: runtime metrics of seperate run with additional data observers enabled

file["config"]: internal configuration object that led to this dataset (information also embedded in file name)

file["failed"]: Boolean on whether configuration has failed (always false) 


All data frames were generated with DataFrames.jl version 1.6.1 and have their columns documented using metadata.

Generating this dataset took ~22h and consumed ~2.72kWh of electricity.
DOI: 10.5281/zenodo.10651124
title: Data of Rosenbrock method of "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences"

description: This deposit contains the datasets generated by the Rosenbrock method for the paper:



J. Schulze, J. Saak: "A unifying framework for ADI-like methods for linear matrix equations and beneficial consequences".


Download the individual files and store them inside the directory data/rosenbrock/.

The file names are structured as follows.



Rail5177: Steel Profile benchmark problem of dimension 5177

adi_initprev=true|false: whether the initial ADI iterate was set to the solution at the previous time step (or zero)

adi_kwargs=...: keyword arguments passed to ADI method



maxiters=200: maximum number of iterations

reltol=1e-10: relative tolerance to reason about convergence

shifts=...: shift strategy



nsteps=45|150: number of Rosenbrock steps

tspan=(4500.0, 0.0): global time span of DRE

.jld2: file suffix. All file have been generated with JLD2.jl version 0.4.38


Load the dataset via using JLD2 and file = load(FILENAME). This will yield a dictionary having the following entries:



file["rosenbrock_metrics"]: data frame containing execution metrics of Rosenbrock iterations

file["adi_metrics"]: data frame containing execution metrocs of ADI iterations of all Rosenbrock iterations

file["timer"]: isolated runtime metrics generated with TimerOutputs.jl version 0.5.23

file["timer_metrics"]: runtime metrics of seperate run with additional data observers enabled

file["config"]: internal configuration object that led to this dataset (information also embedded in file name)

file["failed"]: Boolean on whether configuration has failed (always false) 


All data frames were generated with DataFrames.jl version 1.6.1 and have their columns documented using metadata.

Generating this dataset took ~22h and consumed ~2.72kWh of electricity.
DOI: 10.15468/dl.mzubjp
title: Occurrence Download

description: A dataset listing the 619 species recorded in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Nectariniidae"
 ]
}

 The dataset's 619 records were derived from 294 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002434-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.13997398
title: Bacterial and viral pan-genomes used for evalution of k-mer indexes

description: This record contains the following three datasets:



E. coli pan-genome, obtained as the union of the E. coli genomes from the 661k collection.

S. pneumoniae pan-genome: 616 genomes, as provided in RASE DB S. pneumoniae (https://github.com/c2-d2/rase-db-spneumoniae-sparc/)

SARS-CoV-2 pan-genome, downloaded from GISAID https://gisaid.org/ (access upon registration) on Jan 25, 2023 (GISAID version 2023/01/23, 14,682,066 genomes, 430 Gbp)


We stored all the data sets in the form of simplitigs computed by ProphAsm. We used ProphAsm at version v0.1.1 as ‘prophasm -i {original} -o {preprocessed} -k {preprocessing-k}’ and we used k = 32 for SARS-CoV-2 and S. pneumoniae and k = 63 for E. coli (which requires ProphAsm2).
DOI: 10.15468/dl.j73dsg
title: Occurrence Download

description: A dataset containing 235119 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Senna Mill.)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 235119 records from 1270 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002419-250121130708018/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ed28gt
title: Occurrence Download

description: A dataset containing 62 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((72.87089 21.06494,71.87201 19.76639,73.02072 14.87187,76.56675 7.43019,77.91524 8.77868,78.3148 13.37354,76.26709 13.57332,74.06955 21.26471,72.87089 21.06494))",
 "TaxonKey is Saraca asoca (Roxb.) W.J.de Wilde"
 ]
}

 The dataset includes 62 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0022230-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.utase6
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Cymbopogon mekongensis A.Camus"
 ]
}

 The dataset includes 24 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0019294-240314170635999/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.ezws6t
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Peru",
 "Geometry POLYGON((-84.24874 -19.40385,-34.75126 -19.40385,-34.75126 0.40385,-84.24874 0.40385,-84.24874 -19.40385))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Amburana acreana (Ducke) A.C.Sm."
 ]
}

 The dataset includes 13 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0380723-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.naknkq
title: Occurrence Download

description: A dataset containing 13115 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Inocybe substellata Kühner, Lactarius dryadophilus, Lactarius torminosus (Schaeff.) Gray)",
 "Geometry POLYGON((-9.36035 44.71551,-10.59082 42.81152,-11.82129 36.80928,-7.69043 36.17336,-3.38379 35.88905,3.12012 38.13456,9.18457 38.20366,11.7334 37.16032,12.78809 34.74161,17.09473 33.79741, 23.15918 34.23451,30.10254 32.62087,33.2666 32.99024,35.72754 35.03,33.00293 35.53223,28.69629 35.17381,28.34473 36.31513,25.7959 37.50973,24.91699 39.90974,28.78418 40.6473,30.71777 41.17865,36.87012 45.213,38.18848 46.98025,38.71582 47.7541,39.94629 47.93107,40.20996 49.61071,37.0459 50.34546,35.72754 50.40152,33.79395 52.26816,31.68457 51.94426,31.4209 53.27835,32.56348 53.43572,30.98145 54.77535,30.89355 55.52863,28.43262 56.02295,27.20215 57.65716,27.37793 58.30949,27.90527 59.17593,29.66309 59.88894,27.6416 60.58697,31.50879 62.75473,28.78418 69.83962,30.89355 70.28912,29.22363 71.55274,21.75293 71.30079,14.28223 70.14036,11.38184 67.47492,4.87793 63.66576,-5.53711 71.52491,-10.63477 71.69129,-21.5332 67.74276,-28.56445 65.36684,-24.3457 61.35461,-9.36035 44.71551))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2021"
 ]
}

 The dataset includes 13115 records from 127 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0166999-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b4ksdv
title: Occurrence Download

description: A dataset containing 1106 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is China",
 "OccurrenceStatus is Present",
 "TaxonKey is Alangium platanifolium (Siebold & Zucc.) Harms"
 ]
}

 The dataset includes 1106 records from 34 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0204233-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.gzu9m3
title: Occurrence Download

description: A dataset containing 95 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pristimantis affinis (Werner, 1899))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 95 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0054959-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tkp5j8
title: Occurrence Download

description: A dataset containing 4591 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is WII Herbarium Dataset"
 ]
}

 The dataset includes 4591 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009061-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.9xq3pe
title: Occurrence Download

description: A dataset containing 7143 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "BasisOfRecord is Machine Observation",
 "BasisOfRecord is Observation",
 "BasisOfRecord is Human Observation",
 "BasisOfRecord is Occurrence evidence"
 ]
 },
 "Country is China",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Charadrius alexandrinus Linnaeus, 1758",
 "Year 1972-2022"
 ]
}

 The dataset includes 7143 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0266952-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.rveyua
title: Occurrence Download

description: A dataset containing 48 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Understanding the effects of climate change on Caribbean hawksbill turtles: satellite tracking hawksbill migrations (aggregated per 1-degree cell)"
 ]
}

 The dataset includes 48 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055063-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bdskgg
title: Occurrence Download

description: A dataset containing 2040 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Dermoloma pseudocuneifolium Herink ex Bon, Entoloma ameides (Berk. & Broome) Sacc., Entoloma corvinum (Kühner) Noordel.)",
 "Geometry POLYGON((-9.36035 44.71551,-10.59082 42.81152,-11.82129 36.80928,-7.69043 36.17336,-3.38379 35.88905,3.12012 38.13456,9.18457 38.20366,11.7334 37.16032,12.78809 34.74161,17.09473 33.79741, 23.15918 34.23451,30.10254 32.62087,33.2666 32.99024,35.72754 35.03,33.00293 35.53223,28.69629 35.17381,28.34473 36.31513,25.7959 37.50973,24.91699 39.90974,28.78418 40.6473,30.71777 41.17865,36.87012 45.213,38.18848 46.98025,38.71582 47.7541,39.94629 47.93107,40.20996 49.61071,37.0459 50.34546,35.72754 50.40152,33.79395 52.26816,31.68457 51.94426,31.4209 53.27835,32.56348 53.43572,30.98145 54.77535,30.89355 55.52863,28.43262 56.02295,27.20215 57.65716,27.37793 58.30949,27.90527 59.17593,29.66309 59.88894,27.6416 60.58697,31.50879 62.75473,28.78418 69.83962,30.89355 70.28912,29.22363 71.55274,21.75293 71.30079,14.28223 70.14036,11.38184 67.47492,4.87793 63.66576,-5.53711 71.52491,-10.63477 71.69129,-21.5332 67.74276,-28.56445 65.36684,-24.3457 61.35461,-9.36035 44.71551))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1980",
 "Year is less than or equal to 2021"
 ]
}

 The dataset includes 2040 records from 88 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0166970-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3p3qfd
title: Occurrence Download

description: A dataset containing 854 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "or" : [
 "DatasetKey is Inventario multitaxonómico: PN El Potosí y RB Sierra del Abra Tanchipa (San Luis Potosí)",
 "DatasetKey is Angelo State Natural History Collections (ASNHC) Bird specimens (Arctos)",
 "DatasetKey is MSB Bird Collection (Arctos)",
 "DatasetKey is Biodiversity Research and Teaching Collections - TCWC Vertebrates",
 "DatasetKey is naturgucker",
 "DatasetKey is Xeno-canto - Bird sounds from around the world",
 "DatasetKey is Observation.org, Nature data from around the World",
 "DatasetKey is NEON breeding landbird point counts"
 ]
 },
 "Geometry POLYGON((-112.37883 11.74103,-48.73922 11.74103,-48.73922 37.19688,-112.37883 37.19688,-112.37883 11.74103))",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Mimus polyglottos (Linnaeus, 1758)",
 "Year 2018-2022"
 ]
}

 The dataset includes 854 records from 8 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0327310-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.4mt72x
title: Occurrence Download

description: A dataset containing 809 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Bolitoglossa adspersa (Peters, 1863), Bolitoglossa aspersa (Peters, 1863))",
 "BasisOfRecord is one of (Specimen, Human Observation, Observation, Machine Observation)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 809 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055074-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.8r87ak
title: Occurrence Download

description: A dataset containing 564 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Russian Federation",
 "OccurrenceStatus is Present",
 "PublishingOrg is 28eb1a3f-1c15-4a95-931a-4af90ecb574d",
 {
 "or" : [
 "TaxonKey is Linnea Neck.",
 "TaxonKey is Linnaea borealis L."
 ]
 }
 ]
}

 The dataset includes 564 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0082961-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.fx8x53
title: Occurrence Download

description: A dataset containing 10904 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Erysimum Tourn. ex L.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (United States of America, Canada)"
 ]
}

 The dataset includes 10904 records from 121 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0327321-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yndw88
title: Occurrence Download

description: A dataset containing 3751 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phoenicoparrus jamesi (P.L.Sclater, 1886)"
 ]
}

 The dataset includes 3751 records from 39 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055000-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.g7nt99
title: Occurrence Download

description: A dataset containing 426 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Orconectes rusticus (Girard, 1852)"
 ]
}

 The dataset includes 426 records from 12 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0266957-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b74vcz
title: Occurrence Download

description: A dataset containing 20872 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Draba Dill. ex L.",
 "BasisOfRecord is one of (Specimen)",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (United States of America, Canada)"
 ]
}

 The dataset includes 20872 records from 125 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0327320-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6kan8g
title: Occurrence Download

description: A dataset containing 4302 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Phoenicoparrus andinus (Philippi, 1854)"
 ]
}

 The dataset includes 4302 records from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0055022-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.