cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.fmta4b
title: Occurrence Download

description: A dataset containing 46 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Costa Rica",
 "TaxonKey is Hevea brasiliensis (Willd. ex A.Juss.) Müll.Arg.",
 "Year 1970-2022"
 ]
}

 The dataset includes 46 records from 11 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0161000-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111114593
title: Temple administrative record, UT 1599-12

description: [Text Description:] Temple administrative record. ❧ [Text or Publication Number Note:] UT 1599-12 ❧ [Excavation Description:] Jokha ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Square clay tablet, black color (grey-brown where chipped). 3.5 x 3.5cm
DOI: 10.25549/inscriptifact-ouc111113661
title: Butcher's bill, UT 1599-10

description: [Text Description:] Butcher's bill: sheep, goat, lamb. ❧ [Text or Publication Number Note:] UT 1599-10 ❧ [Excavation Description:] Drehem ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Small clay tablet, beige-brown color. LABEL: "1599" in pencil, "10" in black ink. 2 x 2cm.
DOI: 10.15468/dl.zu9hmh
title: Occurrence Download

description: A dataset containing 5086 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pulmonaria angustifolia L., Ceratocephala falcata (L.) Pers., Rosa chavinii Rapin ex Reut.)",
 "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 5086 records from 79 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0161046-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111113631
title: Butcher's bill, UT 1599-10

description: [Text Description:] Butcher's bill: sheep, goat, lamb. ❧ [Text or Publication Number Note:] UT 1599-10 ❧ [Excavation Description:] Drehem ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Small clay tablet, beige-brown color. LABEL: "1599" in pencil, "10" in black ink. 2 x 2cm.
DOI: 10.15468/dl.bebr78
title: Occurrence Download

description: A dataset containing 9344192 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cistothorus palustris (A.Wilson, 1810), Tyto alba (Scopoli, 1769), Lophodytes cucullatus (Linnaeus, 1758), Nycticorax nycticorax (Linnaeus, 1758), Spizella pallida (Swainson, 1832), Sturnus vulgaris Linnaeus, 1758, Thryothorus ludovicianus (Latham, 1790), Vireo solitarius (A.Wilson, 1810), Lanius borealis Vieillot, 1808, Aechmophorus occidentalis (Lawrence, 1858))",
 "OccurrenceStatus is Present",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 2000",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 },
 "Geometry POLYGON ((-111.2485 41.67354, -52.36458 41.67354, -52.36458 59.54304, -111.2485 59.54304, -111.2485 41.67354))",
 {
 "or" : [
 "CoordinateUncertaintyInMeters is less than 1000",
 "CoordinateUncertaintyInMeters is null"
 ]
 }
 ]
}

 The dataset includes 9344192 records from 52 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0061814-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.bbeyyv
title: Occurrence Download

description: A dataset containing 54402 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Naturhistorisches Museum Mainz, Feldbeobachtungsdaten Pflanzen"
 ]
}

 The dataset includes 54402 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020172-160910150852091/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111286874
title: Incised jar fragment, IAA 96-3288

description: [Text Description:] ?gr ❧ [Text or Publication Number Note:] IAA 96-3288 ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment ❧
DOI: 10.15468/dl.3e7wv3
title: Occurrence Download

description: A dataset containing 35 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Lepus corsicanus de Winton, 1898",
 "HasCoordinate is true",
 "Year is greater than or equal to 2011",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 35 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0061834-240506114902167/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111286806
title: Incised jar fragment, IAA 96-3289

description: [Text Description:] Uncertain letters ❧ [Text or Publication Number Note:] IAA 96-3289 ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment ❧
DOI: 10.15468/dl.wqk4ef
title: Occurrence Download

description: A dataset containing 2157 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Elaeis oleifera (Kunth) Cortés"
 ]
}

 The dataset includes 2157 records from 72 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0161018-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111287106
title: Sherd Inscribed, Hebrew, IAA 1996-3296

description: [Text Description:] hnn… ❧ [Text or Publication Number Note:] IAA 1996-3296, IAA 96-3296 ❧ [Excavation Description:] Found in Jerusalem, City of David ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment, incised before firing ❧
DOI: 10.25549/inscriptifact-ouc111287113
title: Sherd Inscribed, Hebrew, IAA 1996-3296

description: [Text Description:] hnn… ❧ [Text or Publication Number Note:] IAA 1996-3296, IAA 96-3296 ❧ [Excavation Description:] Found in Jerusalem, City of David ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment, incised before firing ❧
DOI: 10.15468/dl.hhkacb
title: Occurrence Download

description: A dataset containing 13188 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Polia hepatica Clerck, 1759, Polychrysia moneta (Fabricius, 1787))",
 "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 13188 records from 103 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0169419-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111287108
title: Incised jar fragment, IAA 96-3365

description: [Text Description:] yod ❧ [Text or Publication Number Note:] IAA 96-3365 ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment ❧
DOI: 10.25549/inscriptifact-ouc111287117
title: Incised jar fragment, IAA 96-3365

description: [Text Description:] yod ❧ [Text or Publication Number Note:] IAA 96-3365 ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment ❧
DOI: 10.15468/dl.xfkrvv
title: Occurrence Download

description: A dataset containing 54 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Pyrois cinnamomea (Goeze, 1781))",
 "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 54 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0169444-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111287119
title: Incised jar fragment, IAA 96-3365

description: [Text Description:] yod ❧ [Text or Publication Number Note:] IAA 96-3365 ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment ❧
DOI: 10.15468/dl.7amu5a
title: Occurrence Download

description: A dataset containing 236 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Specimen",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Carex hartmaniorum A.Cajander"
 ]
}

 The dataset includes 236 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0012411-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111112642
title: Receipt of animal sacrifice, UT 1599-8

description: [Text Description:] Receipt of animal sacrifice to the goddess Nana. ❧ [Text or Publication Number Note:] UT 1599-8 ❧ [Excavation Description:] Drehem ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Small rectangular clay tablet, pink-beige color. Shows fingerprints. LABEL: "1599" in black ink, "8" in red ink. 3 x 2.5cm. ❧ [Physical Object Note:] Reign of Shulgi, second dynastic king.
DOI: 10.25549/inscriptifact-ouc111286384
title: Incised jar fragment, IAA 86-423

description: [Text Description:] lytn(?) ❧ [Text or Publication Number Note:] IAA 86-423 ❧ [Medium:] Clay ❧ [Script Note:] Hebrew ❧ [Physical Object Description:] Incised jar fragment ❧
DOI: 10.15468/dl.a9czqx
title: Occurrence Download

description: A dataset containing 6136 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Cucullia verbasci (Linnaeus, 1758), Sideridis lampra Schawerda, 1913)",
 "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 6136 records from 144 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0169467-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111114401
title: Temple administrative record, UT 1599-12

description: [Text Description:] Temple administrative record. ❧ [Text or Publication Number Note:] UT 1599-12 ❧ [Excavation Description:] Jokha ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Square clay tablet, black color (grey-brown where chipped). 3.5 x 3.5cm
DOI: 10.25549/inscriptifact-ouc111114402
title: Temple administrative record, UT 1599-12

description: [Text Description:] Temple administrative record. ❧ [Text or Publication Number Note:] UT 1599-12 ❧ [Excavation Description:] Jokha ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Square clay tablet, black color (grey-brown where chipped). 3.5 x 3.5cm
DOI: 10.25549/inscriptifact-ouc1sto1652678
title: InscriptiFact -- an image database of inscriptions and artifacts
DOI: 10.15468/dl.8nvj4n
title: Occurrence Download

description: A dataset containing 119 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Procapra picticaudata Hodgson, 1846"
 ]
}

 The dataset includes 119 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0161021-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.25549/inscriptifact-ouc111114230
title: Temple administrative record, UT 1599-11

description: [Text Description:] Temple administrative record, attached to a basket of offerings. With traces of a cord. ❧ [Text or Publication Number Note:] UT 1599-11 ❧ [Excavation Description:] Jokha ❧ [Medium:] Clay ❧ [Script Note:] Cuneiform, Non-Alphabetic ❧ [Physical Object Description:] Small clay tablet, orange obverse and whitish reverse. LABEL: "1599" in black ink, "11" in red ink. 3.75 x 4cm ❧ [Physical Object Note:] Reign of Shu-Sin, fourth dynastic king. ❧ [Physical Object Note:] Yale Oriental Series, Babylonian Texts, Vol. IV, No. 149; Library of J. Pierpont Morgan, Babylonian Records, Vol. III, No. 129.
DOI: 10.15468/dl.43ycub
title: Occurrence Download

description: A dataset containing 134266 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is one of (Salix pentandra L., Salix triandra L., Saxifraga exarata Vill., Saxifraga magellanica Poir., Serratula tinctoria L., Silene coronaria (L.) Clairv.)",
 "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 134266 records from 442 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0161060-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.huvtmj
title: Occurrence Download

description: A dataset containing 429 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((108.6119 11.35393,109.07722 11.35393,109.07722 11.76436,108.6119 11.76436,108.6119 11.35393))",
 "Year 2000-2025"
 ]
}

 The dataset includes 429 records from 20 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003359-250227182430271/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7797/47-199799-1-1-3
title: Bundes-Gesundheitssurvey 1998
DOI: 10.15468/dl.vmjvhd
title: Occurrence Download

description: A dataset containing 14117 species occurrences available in GBIF matching the query:
{
 "and" : [
 "CoordinateUncertaintyInMeters 0.0-10000.0",
 "StateProvince is GuangDong",
 "TaxonKey is Insecta"
 ]
}

 The dataset includes 14117 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003361-250227182430271/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.7797/16-200812-1-1-1
title: Gesundheit von Erwachsenen in Deutschland (DEGS1 2008-2012)
DOI: 10.15468/dl.fnsqn2
title: Occurrence Download

description: A dataset containing 3489 species occurrences available in GBIF matching the query:
{
 "and" : [
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "OccurrenceStatus is Present",
 "TaxonKey is Salmo trutta trutta"
 ]
}

 The dataset includes 3489 records from 49 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003362-250227182430271/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.14958802
title: data
DOI: 10.5281/zenodo.14958803
title: data
DOI: 10.5281/zenodo.14534087
title: Datasets: AFsample2 predicts multiple conformations and ensembles with AlphaFold2

description: Directory Overview

An overview of the directory structure, along with a description of each folder and its contents. Extract as follows.



tar --use-compress-program=unzstd -xvf analysis_results.tar.zst

tar --use-compress-program=unzstd -xvf input_datasets.tar.zst

tar --use-compress-program=unzstd -xvf generated_models.tar.zst


1. analysis_results



Contains results (.csv) of ensemble analysis

Files required to generate images for the manuscript with included summarize.ipynb notebook (updated notebook available at https://github.com/iamysk/AFsample2/blob/main/notebooks/summarize.ipynb)




tar --use-compress-program=unzstd -xvf analysis_results.tar.zst

└── analysis_results   ├── general   ├── oc23   │   ├── afsample2   │   ├── SPEACH_AF   │   ├── ...   └── tp16       ├── afsample2       ├── SPEACH_AF       ├── ...


2. generated_models



This directory stores models generated during the project.

It is organized by dataset names (e.g., oc23, tp16).


Inside generated_models:

oc23 and tp16: Subdirectories corresponding to models corresponding to various methods (AFcluster, AFsample, AFsample2, MSA subsampling, SPEACH_AF) employed in the study. All methods except AFcluster have been implemented in AFsample2 code.



tar --use-compress-program=unzstd -xvf input_datasets.tar.zst

└── input_datasets    ├── oc23    │   ├── fastas    │   ├── filtered_dict.pickle    # pdbids and stats for states    │   ├── msas                               # in .pkl format    │   └── pdbs                               # All reference pdbs used in the study    └── tp16        ├── fastas        ├── msas        └── pdbs


3. input_datasets



Contains raw input datasets used for analysis and model generation.

Organized by dataset names (e.g., oc23, tp16).


Inside input_datasets (oc23 and tp16):







fastas: Directory containing FASTA sequence files.

filtered_dict.pickle (in oc23 only): A Python pickle file with preprocessed or filtered data.

msas: Multiple Sequence Alignments (MSAs) in .pkl format used as input for modeling.

pdbs: PDB structure files related to the datasets.






tar --use-compress-program=unzstd -xvf generated_models.tar.zst

└── generated_models   ├── oc23   │   ├── afsample2   │   ├── SPEACH_AF   │   ├── ...   └── tp16       ├── afsample2       ├── SPEACH_AF       ├── ...


Citation

If you use this dataset, please cite the associated publications.