IonGAP specifications

Information


Unique identifier OMICS_08642
Name IonGAP
Interface Web user interface
Restrictions to use None
Biological technology Life Technologies
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline IonGAP <>

Publication for IonGAP

IonGAP in publications

 (4)
PMCID: 5385187
PMID: 28391484
DOI: 10.1186/s13568-017-0381-6

[…] can be found at genbank: http://www.ncbi.nlm.nih.gov., assembled dna sequences data in fasta format was obtained from the ion reporter 5.0 software. the assembled sequence was annotated through iongap annotation service (http://iongap.hpc.iter.es/), an integrated genome analysis platform for ion torrent sequence data. the phylogenetic analysis was carried out by aligning amino acid […]

PMCID: 5323620
PMID: 28232441
DOI: 10.1128/genomeA.01647-16

[…] length of 185.12 nt and approximately 60× coverage. the genome was assembled de novo in clc genomics workbench version 8.5.1 to create two contig sets. the ion torrent data set was also submitted to iongap (http://iongap.hpc.iter.es) for de novo assembly to create a third contig set (). the three contig data sets were then aligned in the clc genome finishing tool version 1.5.4 and systematically […]

PMCID: 5090054
PMID: 27707895
DOI: 10.1098/rsob.160084

[…] a total of 121 mb was obtained (686 800 reads, mean read length approximately 177 bp). raw sequence data were deposited in the sequence read archive under the accession number srp060555. the iongap web platform (http://iongap.hpc.iter.es) was used for performing genome assembly, gene prediction, snp calling and functional annotation. the s. agalactiae strain ss1 genome sequence […]

PMCID: 4611696
PMID: 26472845
DOI: 10.1128/genomeA.01205-15

[…] into 18 large contigs (>500 bp), giving a consensus length of 1,670,247 bp; the contigs were ordered and compared with the genome of t. equigenitalis strain mce9 (accession no. cp002456) using iongap: integrative bacterial genome analysis for ion torrent sequence data, released in 2015 (http://iongap.hpc.iter.es/iongap/) (). annotation was added by the ncbi prokaryotic genome annotation […]


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IonGAP institution(s)
Information Technology Department, Instituto Tecnológico y de Energías Renovables (ITER), Santa Cruz de Tenerife, Spain; Applied Genomics Group (G2A), Instituto Universitario de Enfermedades Tropicales y Salud Pública de Canarias (CIBICAN), Universidad de La Laguna, Santa Cruz de Tenerife, Spain; Research Unit, Hospital Universitario Nuestra Señora de Candelaria, Santa Cruz de Tenerife, Spain; Departamento de Ingeniería Informática y de Sistemas, Universidad de La Laguna, Santa Cruz de Tenerife, Spain; CIBER de Enfermedades Respiratorias, Instituto de Salud Carlos III, Madrid, Spain

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