Search results for "dist:Bio-Phylo-Forest-DBTree Bio::Tree::Tree"
Bio::Phylo::Forest::DBTree - Phylogenetic database as a tree object
This package provides the functionality to handle very large phylogenies (examples: the NCBI taxonomy, the Green Genes tree) as if they are Bio::Phylo tree objects, with all the possibilities for traversal, computation, serialization, and visualizati...
RVOSA/Bio-Phylo-Forest-DBTree-v0.1.2 - 24 Oct 2017 14:06:26 UTC
Bio::Phylo::Forest::DBTree::Result::Node - Phylogenetic database record as a node object
This package implements an object-relational interface to records in a phylogenetic database. This way, the record can be used as if it's a tree node with the same programming interface as is used by Bio::Phylo, but without making the demands that lo...
RVOSA/Bio-Phylo-Forest-DBTree-v0.1.2 - 24 Oct 2017 14:06:26 UTC
megatree-loader - Loads a Newick tree into a database or a spreadsheet
This program produces a database file or a CSV spreadsheet from a (very large) Newick tree file. Such a database provides much quicker random access to immutable trees, such as very large metabarcoding trees, the NCBI taxonomy, etc. The example trees...
RVOSA/Bio-Phylo-Forest-DBTree-v0.1.2 - 24 Oct 2017 14:06:26 UTC
megatree-pruner - Given a list of taxa, returns subtree from a database
This program produces the subtree of the set of taxa provided as input from a previously produced database. As such, the functionality is roughly similar to extracting the 'common tree' from the NCBI taxonomy, which is a common operation in phylogeno...
RVOSA/Bio-Phylo-Forest-DBTree-v0.1.2 - 24 Oct 2017 14:06:26 UTC
megatree-ncbi-loader - Loads the NCBI taxonomy dump into a database
This program produces a database file from the NCBI taxonomy dump. Such a database provides much quicker random access to the taxonomy tree then by processing the flat files. The example trees that are referred to by the release of Bio::Phylo::Forest...
RVOSA/Bio-Phylo-Forest-DBTree-v0.1.2 - 24 Oct 2017 14:06:26 UTC
megatree-phylotree-loader - Loads a tree in the format of PhyloTree.org
This program produces a database file or a CSV spreadsheet from dump of a haplotype tree as emitted by PhyloTree.org. Such a database provides much quicker random access to immutable trees, such as NRY and mtDNA haplotype trees. The example trees tha...
RVOSA/Bio-Phylo-Forest-DBTree-v0.1.2 - 24 Oct 2017 14:06:26 UTC