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[ Paquet source : physamp  ]

Paquet : physamp (1.1.0-5 et autres)

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sample sequence alignment corresponding to phylogeny

The PhySamp package currently contains two programs: bppphysamp, which samples sequences according to their similarity, and bppalnoptim, which samples a sequence alignment by removing sequences in order to maximize the number of sites suitable for a given analysis. The bppalnoptim program has three running modes: 

 * Interactive: the user will be iteratively proposed a set of choices
   for sequence removal, with their corresponding site gains. The
   procedure stops when the user does not want to remove more sequences,
   and the resulting filtered alignment is written.
 * Automatic: the user enters an a priori criterion for stopping
   the filtering procedure (for instance a minimum number of
   sequences to keep).
 * Diagnostic: this mode allows one to plot the trade-off curve, by
   showing the site gain as a function of the number of removed
   sequences.

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Télécharger physamp

Télécharger pour toutes les architectures proposées
Architecture Version Taille du paquet Espace occupé une fois installé Fichiers
arm64 1.1.0-5+b1 176,7 ko1 827,0 ko [liste des fichiers]