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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: a software tool for the design of overgo probes from large unigene datasets.
OligoSpawn in publications
(2)[…] 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 […]
[…] 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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