软件 开放访问

ahmedmagds / gnuvid:gnuvid 2.2

ahmed m moustafa.


DataCite. XML导出

<?xml version='1.0' encoding='utf-8'?>
<resource xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns="http://datacite.org/schema/kernel-4" xsi:schemaLocation="http://datacite.org/schema/kernel-4 http://schema.datacite.org/meta/kernel-4.1/metadata.xsd">
  <identifier identifierType="DOI">10.5281 / zenodo.4601558</identifier>
  <creators>
    <creator>
      <creatorName>Ahmed M Moustafa</creatorName>
      <affiliation>Children'费城医院</affiliation>
    </creator>
  </creators>
  <titles>
    <title>ahmedmagds / gnuvid:gnuvid 2.2</title>
  </titles>
  <publisher>Zenodo</publisher>
  <publicationYear>2021</publicationYear>
  <dates>
    <date dateType="Issued">2021-03-12</date>
  </dates>
  <resourceType resourceTypeGeneral="Software"/>
  <alternateIdentifiers>
    <alternateIdentifier alternateIdentifierType="url">//americinnmankato.com/record/4601558</alternateIdentifier>
  </alternateIdentifiers>
  <relatedIdentifiers>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsSupplementTo">//github.com/ahmedmagds/GNUVID/tree/v2.2</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="DOI" relationType="IsVersionOf">10.5281 / ZENODO.3927062</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">//americinnmankato.com/communities/covid-19</relatedIdentifier>
    <relatedIdentifier relatedIdentifierType="URL" relationType="IsPartOf">//americinnmankato.com/communities/zenodo</relatedIdentifier>
  </relatedIdentifiers>
  <version>v2.2</version>
  <rightsList>
    <rights rightsURI="info:eu-repo/semantics/openAccess">Open Access</rights>
  </rightsList>
  <descriptions>
    <description descriptionType="Abstract">GNUVID v2.2 now uses minimap2 and Gofasta to align to the reference for prediction using the random forest classifier.
GNUVID now assigns genomes to five new Variants of Concern:
&lt;ul&gt;
&lt;li&gt;&lt;strong&gt;CC81085 represents the Brazilian P.1 lineage (a.k.a. 20J/501Y.V3).&lt;/strong&gt;&lt;/li&gt;
&lt;li&gt;&lt;strong&gt;CC70949 represents the Brazilian P.2 lineage.&lt;/strong&gt;&lt;/li&gt;
&lt;li&gt;&lt;strong&gt;CC72860 represents the Californian B.1.429 (CAL.20C) lineage.&lt;/strong&gt;&lt;/li&gt;
&lt;li&gt;&lt;strong&gt;CC71014 represents the South African B.1.351 lineage (a.k.a. 20H/501Y.V2).&lt;/strong&gt;&lt;/li&gt;
&lt;li&gt;&lt;strong&gt;10 CCs represent the UK B.1.1.7 lineage (a.k.a. 20I/501Y.V1 Variant of Concern (VOC) 202012/01). (10 CCs: 46649, 45062, 49676, 54949, 54452, 58534, 57630, 66559, 62415 and 67441).&lt;/strong&gt;
## New Features&lt;/li&gt;
&lt;li&gt;GNUVID now excludes genomes that does not pass quality check for sequence length (15000) and proportion of ambiguity (Ns) (0.5). User can change these cutoffs.&lt;/li&gt;
&lt;li&gt;Skip exact matching (-e): do only prediction [Default: do exact matching first].&lt;/li&gt;
&lt;li&gt;Prediction block size (-b): you can now assign the block size of genomes to be predicted at once [Default: 1000]. This will be helpful for machines with limited memory.&lt;/li&gt;
&lt;/ul&gt;</description>
  </descriptions>
</resource>
3,201
99
views
downloads
所有版本 这个版本
意见 3,201726
下载 9915
数据量 4.7 GB490.4 MB.
独特的观点 2,659685
独特的下载 8315

分享

引用