Difference between revisions of "PacBio sequencing"
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<span style="font-size:large;">Disclaimer</span> | <span style="font-size:large;">Disclaimer</span> | ||
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| + | The following PacBio sequencing walk-through is the result of a few weeks of playing around with the described bioinformatics tools. I am not an expert user of most of these tools, nor do I have in-depth experience with genome assembly. Furthermore, these pages are intended primarily for users affiliated with the University of Oslo (UoO), and with user accounts on the UoO high-performance computing system Abel. If the described tools are installed modules on Abel, I will not describe installation procedures. | ||
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| + | This wiki is certain to be incomplete and sometime may be incorrect. It represents my understanding at the time of writing, and will be updated when required. Use it at your own risc! | ||
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<span style="font-size:large;">SMRT Analysis</span> | <span style="font-size:large;">SMRT Analysis</span> | ||
| − | *[[ | + | *[[SMRT Analysis: Introduction|<span style="font-size:medium;">Introduction</span>]] |
*<span style="font-size:medium;">[[SMRT Analyis: The input.xml file|The input.xml file]]</span> | *<span style="font-size:medium;">[[SMRT Analyis: The input.xml file|The input.xml file]]</span> | ||
*<span style="font-size:medium;">[[SMRT Analysis: The params.xml protocol file|The params.xml protocol file]]</span> | *<span style="font-size:medium;">[[SMRT Analysis: The params.xml protocol file|The params.xml protocol file]]</span> | ||
Revision as of 20:56, 11 March 2015
Disclaimer
The following PacBio sequencing walk-through is the result of a few weeks of playing around with the described bioinformatics tools. I am not an expert user of most of these tools, nor do I have in-depth experience with genome assembly. Furthermore, these pages are intended primarily for users affiliated with the University of Oslo (UoO), and with user accounts on the UoO high-performance computing system Abel. If the described tools are installed modules on Abel, I will not describe installation procedures.
This wiki is certain to be incomplete and sometime may be incorrect. It represents my understanding at the time of writing, and will be updated when required. Use it at your own risc!
SMRT Analysis
- Introduction
- The input.xml file
- The params.xml protocol file
- Read filtering
- Read correction
- Mapping reads to a reference
- Assembly
PBrC
MHAP
