OligoSpawn statistics

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OligoSpawn specifications

Information


Unique identifier OMICS_26489
Name OligoSpawn
Interface Web user interface
Restrictions to use None
Input format FASTA
Programming languages PHP
Computer skills Basic
Stability Stable
Source code URL http://www.oligospawn.org/dwn/oligospawn_src.zip
Registration required Yes
Maintained Yes

Maintainers


  • person_outline Stefano Lordi <>
  • person_outline Tao Jiang <>
  • person_outline Jie Zheng <>
  • person_outline Jan Svensson <>
  • person_outline Timothy Close <>

Information


Unique identifier OMICS_26489
Name OligoSpawn
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input format FASTA
Operating system Unix/Linux
Programming languages C++, PHP
License GNU General Public License version 3.0
Computer skills Advanced
Stability Stable
Source code URL http://www.oligospawn.org/dwn/oligospawn_src.zip
Maintained Yes

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Maintainers


  • person_outline Stefano Lordi <>
  • person_outline Tao Jiang <>
  • person_outline Jie Zheng <>
  • person_outline Jan Svensson <>
  • person_outline Timothy Close <>

Publication for OligoSpawn

OligoSpawn in publications

 (2)
PMCID: 4263668
PMID: 25503521
DOI: 10.1371/journal.pone.0114631

[…] library described below, four overgo pairs (forward and reverse) were designed () using saltwater crocodile sequences of mhc class i and ii from previous studies , . the overgos were designed using oligospawn software, with a gc content of 50–60% and 36 bp in length (8-bp overlapping) . the specificity of the overgos was checked against vertebrate sequences using the basic local alignment […]

PMCID: 2717093
PMID: 19604400
DOI: 10.1186/1471-2105-10-217

[…] and runs under linux and mac os., we used the genomic data of two plants, namely barley and rice, to compare our compartmentalized approach to the standard fpc assembly., for barley, we used oligospawn[] to design 12,467 36-mer oligonucleotide probes from a dataset of 53,799 barley unigenes obtained from harvest website []. a unigene is obtained as a product of assembling several ests. […]


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OligoSpawn institution(s)
Department of Computer Science & Engineering, University of California, Riverside, CA, USA; Department of Botany & Plant Sciences, University of California, Riverside, CA, USA
OligoSpawn funding source(s)
Supported in part by NSF DBI-0321756, NSF CAREER IIS0447773, and USDA/CSREES 2001-52100-11346.

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