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start [2021/02/19 09:27] twagner |
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===== SPHIRE Wiki ===== | ===== SPHIRE Wiki ===== | ||
- | <WRAP group> | ||
- | <WRAP left 10%> | + | If you want to dig deep into the SPHIRE pipeline then you are in the right place. This Wiki will provide you with information about the major programs within SPHIRE and how to use them. Of course, you will also find information about installation, |
- | {{ wiki: | + | |
- | </ | + | Happy cryo-EM' |
- | If you want to dig deep into the SPHIRE pipeline then you are in the right place. This Wiki will provide you with information about the major programs within SPHIRE and how to use them. Of course, you will also find information about installation, | + | |
- | <WRAP clear/> | + | |
- | </ | + | |
===== Short application info ===== | ===== Short application info ===== | ||
- | <WRAP group> | + | | \\ **Projects** \\ \\ Main project settings, such as name, pixel, and particles sizes.|{{ |
+ | | \\ **Cter** \\ \\ CTF estimation and graphical evaluation tool.|{{ | ||
+ | | \\ **Window** \\ \\ Particle picking and extraction.|{{ | ||
+ | | \\ **ISAC** \\ \\ Reproducible class average calculation. \\ |{{ : | ||
+ | | \\ **Viper** \\ \\ Reproducible //ab initio// model calculation. \\ |{{ : | ||
+ | | \\ **Meridien** \\ \\ Automatic high-resolution 3D refinement. \\ |{{ : | ||
+ | | | | | ||
+ | | | | | ||
+ | | | | | ||
- | <WRAP left 10%> | ||
- | [[: | ||
- | </ | ||
- | === Movie === | ||
- | Micrograph frame alignment and drift evaluation tools based on [[http:// | ||
- | <WRAP clear /> | ||
\\ | \\ | ||
- | <WRAP left 10%> | + | | | |
- | [[: | + | |
- | </ | + | |
- | === Cter === | + | |
- | CTF estimation and graphical evaluation tool. | + | |
- | <WRAP clear /> | + | |
- | \\ | + | |
- | <WRAP left 10%> | + | | |
- | [[: | + | <code> |
- | </WRAP> | + | |
- | === Window === | + | |
- | Particle picking and extraction. | + | |
- | <WRAP clear /> | + | |
- | \\ | + | |
- | <WRAP left 10%> | + | \\ Reproducible 3D clustering. |
- | [[: | + | |
- | </ | + | |
- | === Isac === | + | |
- | Reproducible class average calculation. | + | |
- | <WRAP clear /> | + | |
- | \\ | + | |
- | <WRAP left 10%> | + | </code> |
- | [[: | + | |
- | </ | + | |
- | === Rviper === | + | |
- | Reproducible //ab initio// model calculation. | + | |
- | <WRAP clear /> | + | |
- | \\ | + | |
- | <WRAP left 10%> | + | | |
- | [[: | + | <code> |
- | </WRAP> | + | |
- | === Meridien === | + | |
- | Automatic high-resolution 3D refinement. | + | |
- | <WRAP clear /> | + | |
- | \\ | + | |
- | <WRAP left 10%> | + | \\ Signal subtraction. |
- | [[:pipeline: | + | |
- | </WRAP> | + | </code> |
- | === Rsort3D === | + | |
- | Reproducible 3D clustering. | + | | |
- | <WRAP clear /> | + | < |
- | \\ | + | |
+ | \\ Real-space local resolution calculation. | ||
+ | |||
+ | </ | ||
+ | |||
+ | | | ||
+ | < | ||
+ | |||
+ | \\ Movie frame alignment with [[http:// | ||
+ | |||
+ | </code> | ||
+ | |||
+ | | | ||
+ | <code> | ||
+ | |||
+ | \\ Tools and scripts to make your life easier. | ||
+ | |||
+ | </ | ||
- | <WRAP left 10%> | ||
- | [[: | ||
- | </ | ||
- | === LocalRes === | ||
- | Real-space local resolution calculation. | ||
- | <WRAP clear /> | ||
- | \\ | ||
- | <WRAP left 10%> | ||
- | [[: | ||
- | </ | ||
- | === Utilities === | ||
- | Tools and scripts to make your life easier. | ||
- | <WRAP clear /> | ||
- | \\ | ||
- | <WRAP left 10%> | ||
- | [[: | ||
- | </ | ||
- | === Settings === | ||
- | Main project settings, such as name, pixel and particles sizes. | ||
- | <WRAP clear /> | ||
- | \\ | ||
- | </ |