Mercurial > repos > john-mccallum > pcr_markers
comparison README.md @ 5:b321e0517be3 draft
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| author | ben-warren |
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| date | Thu, 22 May 2014 20:30:19 -0400 |
| parents | |
| children | f201e8c6e004 |
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| 1 galaxy-pcr-markers | |
| 2 ================== | |
| 3 | |
| 4 Scripts for design of PCR-based Marker Assays from DNA sequence variant data, and xml wrappers for use in Galaxy workflow environment | |
| 5 | |
| 6 Also available for download at Galaxy Toolshed http://toolshed.g2.bx.psu.edu/ | |
| 7 hg clone http://toolshed.g2.bx.psu.edu/repos/john-mccallum/pcr_markers | |
| 8 | |
| 9 NOTE that the primer design tool *design_primers.py* relies on EMBOSS ePrimer3 which depends on Primer3 1.1.4. | |
| 10 The updated tool *design_HRM_primers.py* does not have this restriction and should work with Primer3 V2. | |
| 11 | |
| 12 Please see development branch HRM for optimised design of high-resolution melting PCR assays using the uMelt web service at University of Utah. | |
| 13 | |
| 14 | |
| 15 **CITATION** | |
| 16 A Toolkit For Bulk PCR-Based Marker Design From Next-Generation Sequence Data: Application For Development Of A Framework Linkage Map In Bulb Onion (Allium cepa L.) (2012) | |
| 17 | |
| 18 Samantha Baldwin, Roopashree Revanna, Susan Thomson, Meeghan Pither-Joyce, Kathryn Wright, Ross Crowhurst, Mark Fiers, Leshi Chen, Richard MacKnight, John A. McCallum | |
| 19 | |
| 20 BMC Genomics 2012, 13:637 http://www.biomedcentral.com/1471-2164/13/637/abstract | |
| 21 | |
| 22 **Acknowledgements** | |
| 23 Current development of these tools is funded by the New Zealand Ministry for Business, Innovation & Employment project 'Virtual Institute of Statistical Genetics' (VISG) | |
| 24 See http://www.visg.co.nz |