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tutorials:eccb_t2_studer [2012/09/06 17:17] romainstuder |
tutorials:eccb_t2_studer [2012/09/09 11:31] (current) romainstuder |
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| - | ===== Practical ======= | + | ===== Practical ====== |
| + | === Introduction === | ||
| - | -- Part I on amino acids dataset: | + | The presentation is available here: |
| - | * [[tutorials:ECCB_T2_badasp | BADASP ]] | + | {{:tutorials:eccb2012_t2_romainstuder.pdf.zip|}} |
| - | * [[tutorials:ECCB_T2_tdg09 | TDG09 ]] | + | |
| - | * [[tutorials:ECCB_T2_fundi | FunDi ]] | + | |
| - | * [[tutorials:ECCB_T2_diverge | Diverge ]] | + | |
| - | -- Part II on nucleotides dataset: | + | === Useful tools === |
| - | * [[tutorials:ECCB_T2_codeml | Codeml / PAML ]] | + | Jalview: [[http://www.jalview.org/download.html]] |
| + | (It could be better to increase the memory allocated to java: http://www.jalview.org/jvmmemoryparams.html ) | ||
| + | |||
| + | PyMOL: [[http://sourceforge.net/projects/pymol/]] | ||
| + | (or [[http://sourceforge.net/projects/pymol/files/Legacy/]]) | ||
| + | |||
| + | NJplot: [[http://pbil.univ-lyon1.fr/software/njplot.html]] | ||
| + | |||
| + | === Part I on amino acids dataset: === | ||
| + | |||
| + | * [[tutorials:ECCB_T2_badasp | BADASP: Analysis of the V-type proton ATPase 116 kDa subunit a gene family ]] (Linux / MacOSX / Windows) | ||
| + | * [[tutorials:ECCB_T2_tdg09 | TDG09: Analysis of the Hemagglutinin HA1 chain]] (Linux / MacOSX / Windows) | ||
| + | * [[tutorials:ECCB_T2_fundi | FunDi: Analysis of the GAPDH ]] (Linux / MacOSX) | ||
| + | * [[tutorials:ECCB_T2_diverge | Diverge 2: Analysis of the GAPDH ]] (Windows) | ||
| + | |||
| + | |||
| + | === Part II on nucleotides dataset:=== | ||
| + | |||
| + | |||
| + | * [[tutorials:ECCB_T2_codeml | Codeml / PAML: Detection of positive selection in the serine/threonine-protein kinase gene family ]] (Linux / MacOSX / Windows) | ||
