cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15468/dl.j5c22k
title: Occurrence Download

description: A dataset containing 217 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Etheostoma trisella Bailey & Richards, 1963"
 ]
}

 The dataset includes 217 records from 17 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0071792-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.lg428q
title: Occurrence Download

description: A dataset containing 1795 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Amazona viridigenalis (Cassin, 1853)"
 ]
}

 The dataset includes 1795 records from 43 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000894-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.52kqgb
title: Occurrence Download

description: A dataset containing 15 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Corryocactus pulquinensis Cárdenas"
 ]
}

 The dataset includes 15 records from 6 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0155326-240321170329656/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.h9mwmz
title: Occurrence Download

description: A dataset containing 336 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Biomphalaria straminea (Dunker, 1848)"
 ]
}

 The dataset includes 336 records from 13 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0244310-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.qa4vhd
title: Occurrence Download

description: A dataset containing 8167368 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Human Observation",
 "Country is Mexico"
 ]
}

 The dataset includes 8167368 records from 403 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000897-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.5bw3ft
title: Occurrence Download

description: A dataset containing 41 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Hyloxalus mittermeieri (Rivero, 1991)"
 ]
}

 The dataset includes 41 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0020959-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.exevga
title: Occurrence Download

description: A dataset containing 107 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Biotop Binsenwiesen und Ernst-Reiter-Wiese (Wehrheim/Taunus)"
 ]
}

 The dataset includes 107 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009353-160822134323880/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.82qgcu
title: Occurrence Download

description: A dataset containing 5164 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rabidosa rabida (Walckenaer, 1837)"
 ]
}

 The dataset includes 5164 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0134646-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jsptgs
title: Occurrence Download

description: A dataset containing 24 species occurrences available in GBIF matching the query:
{
 "and" : [
 {
 "and" : [
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 {
 "not" : {
 "BasisOfRecord" : [
 "is one of (Fossil, Living Specimen)"
 ]
 }
 }
 ]
 },
 "TaxonKey is Micromacronus leytensis Amadon, 1962"
 ]
}

 The dataset includes 24 records from 3 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0052835-240229165702484/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.njvxd7
title: Occurrence Download

description: A dataset containing 101889 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Rhinanthus minor L."
 ]
}

 The dataset includes 101889 records from 391 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009353-170714134226665/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.tf3g3b
title: Occurrence Download

description: A dataset listing the 6619 species recorded in GBIF matching the query:
{
 "and" : [
 "Country is Colombia",
 "TaxonKey is Aves"
 ]
}

 The dataset's 6619 records were derived from 510 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0004017-210914110416597/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.mg6b33
title: Occurrence Download

description: A dataset containing 13 species occurrences available in GBIF matching the query:
{
 "and" : [
 "BasisOfRecord is Material citation",
 "TaxonKey is Hypnea cervicornis J.Agardh"
 ]
}

 The dataset includes 13 records from 4 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0071797-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.hjandt
title: Occurrence Download

description: A dataset containing 25 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Alouatta villosa"
 ]
}

 The dataset includes 25 records from 5 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0010532-170826194755519/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.yfar8n
title: Occurrence Download

description: A dataset containing 171 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Apistogramma macmasteri Kullander, 1979"
 ]
}

 The dataset includes 171 records from 27 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0233027-200613084148143/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.1t87xd
title: Occurrence Download

description: A dataset containing 16043 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Country is Mexico",
 "TaxonKey is Aratinga canicularis (Linnaeus, 1758)"
 ]
}

 The dataset includes 16043 records from 69 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000903-190918142434337/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.6xg9th
title: Occurrence Download

description: A dataset containing 3127 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Angelica heterocarpa M.J.Lloyd",
 "HasCoordinate is true",
 "HasGeospatialIssue is false"
 ]
}

 The dataset includes 3127 records from 47 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0071771-231120084113126/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.d69u4p
title: Occurrence Download

description: A dataset containing 495619 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is iNaturalist Research-grade Observations",
 "HasCoordinate is true",
 "HasGeospatialIssue is false",
 "Country is one of (Canada, Mexico, United States of America)",
 "EventDate is greater than or equal to 2023-04-30",
 "EventDate is less than or equal to 2023-05-30",
 {
 "not" : {
 "Issue" : [
 "is one of (Basis of record invalid, Coordinate reprojection failed, Coordinate reprojection suspicious, Coordinate precision invalid, Coordinate uncertainty meters invalid, Country mismatch, Country invalid, Geodetic datum invalid, Presumed swapped coordinate, Presumed negated longitude, Presumed negated latitude, Country coordinate mismatch)"
 ]
 }
 }
 ]
}

 The dataset includes 495619 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0262068-230224095556074/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.587ksy
title: Occurrence Download

description: A dataset containing 29947 species occurrences available in GBIF matching the query:
{
 "and" : [
 "OccurrenceStatus is Present",
 "TaxonKey is Liparis loeselii (L.) Rich."
 ]
}

 The dataset includes 29947 records from 290 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0173023-220831081235567/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.aw5wxf
title: Occurrence Download

description: A dataset listing the 114 species recorded in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((15.7148 47.26119,15.71829 47.25605,15.72515 47.24933,15.73284 47.24741,15.74217 47.2448,15.75329 47.2448,15.75851 47.2448,15.76496 47.24576,15.77155 47.2459,15.78239 47.24837,15.78994 47.25235,15.79694 47.25976,15.80079 47.26539,15.80518 47.27047,15.80696 47.28076,15.80669 47.28831,15.80628 47.29517,15.80435 47.30108,15.80161 47.30519,15.79694 47.30876,15.78994 47.31329,15.78514 47.31576,15.78129 47.31755,15.77594 47.32057,15.76771 47.32304,15.76167 47.324,15.75549 47.32565,15.74451 47.32496,15.73902 47.324,15.73366 47.3207,15.72735 47.31714,15.71953 47.31192,15.71609 47.30986,15.70676 47.30423,15.70415 47.30108,15.70196 47.29476,15.69935 47.28694,15.70127 47.28158,15.70525 47.27609,15.70711 47.27066,15.71041 47.26531,15.7148 47.26119))",
 "Year 2006-2023"
 ]
}

 The dataset's 114 records were derived from 7 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000979-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.b7v5sh
title: Occurrence Download

description: A dataset containing 12657 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is EOD – eBird Observation Dataset",
 "GadmGid is FRA.11.1_1"
 ]
}

 The dataset includes 12657 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001001-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.632enf
title: Occurrence Download

description: A dataset containing 203 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Ligularia dictyoneura (Franch.) Hand.-Mazz."
 ]
}

 The dataset includes 203 records from 19 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0009210-230530130749713/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5281/zenodo.10982929
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 08-RS214.

 

= Changelog =

version 3.2.1

* Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.

version 3.2.0

* Updated to GTDB 08-RS214.

version 3.1.2

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.
DOI: 10.5281/zenodo.11107165
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 08-RS214.

 

= Changelog =

version 4.1.0

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2 (this is the same as version 3.1.2, but with an updated version number).

version 3.2.1

* Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.

version 3.2.0

* Updated to GTDB 08-RS214.

version 3.1.2

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.
DOI: 10.5281/zenodo.11107168
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 08-RS214.

 

= Changelog =

version 4.2.0

* Updated GTDB 08-RS214 package to metapackage version 5, and smafa database version 2.

version 4.1.0

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2 (this is the same as version 3.1.2, but with an updated version number).

version 3.2.1

* Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.

version 3.2.0

* Updated to GTDB 08-RS214.

version 3.1.2

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.
DOI: 10.5281/zenodo.11107832
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 08-RS214.

 

= Changelog =

version 4.2.1

* Changed name of .zb folder to be standard

version 4.2.0

* Updated GTDB 08-RS214 package to metapackage version 5, and smafa database version 2.

version 4.1.0

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2 (this is the same as version 3.1.2, but with an updated version number).

version 3.2.1

* Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.

version 3.2.0

* Updated to GTDB 08-RS214.

version 3.1.2

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.
DOI: 10.5281/zenodo.11123537
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 08-RS214.

 

= Changelog =

version 4.2.2

* Fxied name of .zb folder to be correct version

version 4.2.1

* Changed name of .zb folder to be standard

version 4.2.0

* Updated GTDB 08-RS214 package to metapackage version 5, and smafa database version 2.

version 4.1.0

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2 (this is the same as version 3.1.2, but with an updated version number).

version 3.2.1

* Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.

version 3.2.0

* Updated to GTDB 08-RS214.

version 3.1.2

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.
DOI: 10.5281/zenodo.11323477
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 09-RS220, but older versions are available in the history of this record.

 

= Changelog =

version 4.3.0

* Updated to GTDB 09-RS220.

version 4.2.2

* Fxied name of .zb folder to be correct version

version 4.2.1

* Changed name of .zb folder to be standard

version 4.2.0

* Updated GTDB 08-RS214 package to metapackage version 5, and smafa database version 2.

version 4.1.0

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2 (this is the same as version 3.1.2, but with an updated version number).

version 3.2.1

* Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.

version 3.2.0

* Updated to GTDB 08-RS214.

version 3.1.2

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.
DOI: 10.5281/zenodo.15232972
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode.

SingleM is available at https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 10-RS226, but older versions available in the history of this record should still work with the newest SingleM software.

 

Changelog

version 5.4.0



Updated to GTDB 10-RS226.

The 5.x version number indicates the metapackage format. Old 4.x versions still work with the current software version.


version 4.3.0



Updated to GTDB 09-RS220.


version 4.2.2



Fixed name of .zb folder to be correct version


version 4.2.1



Changed name of .zb folder to be standard


version 4.2.0



Updated GTDB 08-RS214 package to metapackage version 5, and smafa database version 2.


version 4.1.0



Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2 (this is the same as version 3.1.2, but with an updated version number).


version 3.2.1



Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.


version 3.2.0



Updated to GTDB 08-RS214.


version 3.1.2



Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.
DOI: 10.5281/zenodo.6534091
title: SingleM pipe search database

description: Data to be used with SingleM in "pipe" mode. https://github.com/wwood/singlem
DOI: 10.5281/zenodo.7130825
title: Default SingleM reference "metapackage" data

description: Data to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem
DOI: 10.5281/zenodo.7582579
title: Default SingleM reference "metapackage" data

description: Data to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem
DOI: 10.5281/zenodo.8419620
title: Default SingleM reference "metapackage" data

description: SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery. The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem. Built from Genome Taxonomy Database (GTDB) version 08-RS214. = Changelog = version 3.2.1 * Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination. version 3.2.0 * Updated to GTDB 08-RS214.