Binary package “physamp” in ubuntu oracular
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.
Source package
Published versions
- physamp 1.1.0-4build2 in amd64 (Release)
- physamp 1.1.0-5 in amd64 (Proposed)
- physamp 1.1.0-5 in amd64 (Release)
- physamp 1.1.0-4build2 in arm64 (Release)
- physamp 1.1.0-5 in arm64 (Proposed)
- physamp 1.1.0-5 in arm64 (Release)
- physamp 1.1.0-4build2 in armhf (Release)
- physamp 1.1.0-5 in armhf (Release)
- physamp 1.1.0-4build2 in ppc64el (Release)
- physamp 1.1.0-5 in ppc64el (Proposed)
- physamp 1.1.0-5 in ppc64el (Release)
- physamp 1.1.0-4build2 in riscv64 (Release)
- physamp 1.1.0-5 in riscv64 (Proposed)
- physamp 1.1.0-5 in riscv64 (Release)
- physamp 1.1.0-4build2 in s390x (Release)
- physamp 1.1.0-5 in s390x (Proposed)
- physamp 1.1.0-5 in s390x (Release)