MGAviewer: a desktop visualization tool for analysis of metagenomics alignment data
Identifieur interne : 000492 ( Main/Curation ); précédent : 000491; suivant : 000493MGAviewer: a desktop visualization tool for analysis of metagenomics alignment data
Auteurs : Zhengwei Zhu ; Beifang Niu ; Jing Chen ; Sitao Wu ; Shulei Sun ; Weizhong LiSource :
- Bioinformatics [ 1367-4803 ] ; 2012.
Abstract
Url:
DOI: 10.1093/bioinformatics/bts567
PubMed: 23044549
PubMed Central: 3530914
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: Pour aller vers cette notice dans l'étape Curation :000497
- to stream Pmc, to step Curation: Pour aller vers cette notice dans l'étape Curation :000497
- to stream Pmc, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :000403
- to stream Ncbi, to step Merge: Pour aller vers cette notice dans l'étape Curation :000358
- to stream Ncbi, to step Curation: Pour aller vers cette notice dans l'étape Curation :000358
- to stream Ncbi, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :000358
- to stream Main, to step Merge: Pour aller vers cette notice dans l'étape Curation :000493
Links to Exploration step
PMC:3530914Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">MGAviewer: a desktop visualization tool for analysis of metagenomics
alignment data</title>
<author><name sortKey="Zhu, Zhengwei" sort="Zhu, Zhengwei" uniqKey="Zhu Z" first="Zhengwei" last="Zhu">Zhengwei Zhu</name>
</author>
<author><name sortKey="Niu, Beifang" sort="Niu, Beifang" uniqKey="Niu B" first="Beifang" last="Niu">Beifang Niu</name>
</author>
<author><name sortKey="Chen, Jing" sort="Chen, Jing" uniqKey="Chen J" first="Jing" last="Chen">Jing Chen</name>
</author>
<author><name sortKey="Wu, Sitao" sort="Wu, Sitao" uniqKey="Wu S" first="Sitao" last="Wu">Sitao Wu</name>
</author>
<author><name sortKey="Sun, Shulei" sort="Sun, Shulei" uniqKey="Sun S" first="Shulei" last="Sun">Shulei Sun</name>
</author>
<author><name sortKey="Li, Weizhong" sort="Li, Weizhong" uniqKey="Li W" first="Weizhong" last="Li">Weizhong Li</name>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">PMC</idno>
<idno type="pmid">23044549</idno>
<idno type="pmc">3530914</idno>
<idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3530914</idno>
<idno type="RBID">PMC:3530914</idno>
<idno type="doi">10.1093/bioinformatics/bts567</idno>
<date when="2012">2012</date>
<idno type="wicri:Area/Pmc/Corpus">000497</idno>
<idno type="wicri:Area/Pmc/Curation">000497</idno>
<idno type="wicri:Area/Pmc/Checkpoint">000403</idno>
<idno type="wicri:Area/Ncbi/Merge">000358</idno>
<idno type="wicri:Area/Ncbi/Curation">000358</idno>
<idno type="wicri:Area/Ncbi/Checkpoint">000358</idno>
<idno type="wicri:doubleKey">1367-4803:2012:Zhu Z:mgaviewer:a:desktop</idno>
<idno type="wicri:Area/Main/Merge">000493</idno>
<idno type="wicri:Area/Main/Curation">000492</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">MGAviewer: a desktop visualization tool for analysis of metagenomics
alignment data</title>
<author><name sortKey="Zhu, Zhengwei" sort="Zhu, Zhengwei" uniqKey="Zhu Z" first="Zhengwei" last="Zhu">Zhengwei Zhu</name>
</author>
<author><name sortKey="Niu, Beifang" sort="Niu, Beifang" uniqKey="Niu B" first="Beifang" last="Niu">Beifang Niu</name>
</author>
<author><name sortKey="Chen, Jing" sort="Chen, Jing" uniqKey="Chen J" first="Jing" last="Chen">Jing Chen</name>
</author>
<author><name sortKey="Wu, Sitao" sort="Wu, Sitao" uniqKey="Wu S" first="Sitao" last="Wu">Sitao Wu</name>
</author>
<author><name sortKey="Sun, Shulei" sort="Sun, Shulei" uniqKey="Sun S" first="Shulei" last="Sun">Shulei Sun</name>
</author>
<author><name sortKey="Li, Weizhong" sort="Li, Weizhong" uniqKey="Li W" first="Weizhong" last="Li">Weizhong Li</name>
</author>
</analytic>
<series><title level="j">Bioinformatics</title>
<idno type="ISSN">1367-4803</idno>
<idno type="eISSN">1367-4811</idno>
<imprint><date when="2012">2012</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en"><p><bold>Summary:</bold>
Numerous metagenomics projects have produced tremendous amounts of
sequencing data. Aligning these sequences to reference genomes is an essential analysis in
metagenomics studies. Large-scale alignment data call for intuitive and efficient
visualization tool. However, current tools such as various genome browsers are highly
specialized to handle intraspecies mapping results. They are not suitable for alignment
data in metagenomics, which are often interspecies alignments. We have developed a web
browser-based desktop application for interactively visualizing alignment data of
metagenomic sequences. This viewer is easy to use on all computer systems with modern web
browsers and requires no software installation.</p>
<p><bold>Availability:</bold>
<ext-link ext-link-type="uri" xlink:href="http://weizhongli-lab.org/mgaviewer">http://weizhongli-lab.org/mgaviewer</ext-link>
</p>
<p><bold>Contact:</bold>
<email>liwz@sdsc.edu</email>
</p>
</div>
</front>
<back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Abeel, T" uniqKey="Abeel T">T Abeel</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Altschul, Sf" uniqKey="Altschul S">SF Altschul</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Bao, H" uniqKey="Bao H">H Bao</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Dreszer, Tr" uniqKey="Dreszer T">TR Dreszer</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Kent, Wj" uniqKey="Kent W">WJ Kent</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Manske, Hm" uniqKey="Manske H">HM Manske</name>
</author>
<author><name sortKey="Kwiatkowski, Dp" uniqKey="Kwiatkowski D">DP Kwiatkowski</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Mardis, Er" uniqKey="Mardis E">ER Mardis</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Milne, I" uniqKey="Milne I">I Milne</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Nicol, Jw" uniqKey="Nicol J">JW Nicol</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Niu, B" uniqKey="Niu B">B Niu</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Popendorf, K" uniqKey="Popendorf K">K Popendorf</name>
</author>
<author><name sortKey="Sakakibara, Y" uniqKey="Sakakibara Y">Y Sakakibara</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Qin, J" uniqKey="Qin J">J Qin</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Robinson, Jt" uniqKey="Robinson J">JT Robinson</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Rusch, Db" uniqKey="Rusch D">DB Rusch</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Skinner, Me" uniqKey="Skinner M">ME Skinner</name>
</author>
</analytic>
</biblStruct>
<biblStruct><analytic><author><name sortKey="Sun, S" uniqKey="Sun S">S Sun</name>
</author>
</analytic>
</biblStruct>
</listBibl>
</div1>
</back>
</TEI>
</record>
Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Ticri/CIDE/explor/CyberinfraV1/Data/Main/Curation
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000492 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Curation/biblio.hfd -nk 000492 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien |wiki= Ticri/CIDE |area= CyberinfraV1 |flux= Main |étape= Curation |type= RBID |clé= PMC:3530914 |texte= MGAviewer: a desktop visualization tool for analysis of metagenomics alignment data }}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Curation/RBID.i -Sk "pubmed:23044549" \ | HfdSelect -Kh $EXPLOR_AREA/Data/Main/Curation/biblio.hfd \ | NlmPubMed2Wicri -a CyberinfraV1
![]() | This area was generated with Dilib version V0.6.25. | ![]() |