Search results for "distribution:Bio-Community taxonomy"
Bio::Community::TaxonomyUtils - Functions for manipulating taxonomic lineages
This module implements functions to manipulate taxonomic lineages, as arrayref of taxon names or taxon objects....
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC
bc_add_taxonomy - Add a taxonomic lineage to community members
This script takes communities in which members have IDs reflecting their position in a taxonomic system and add the taxonomic lineage information to each member. The string 'unidentified' is given to members for which no taxonomic lineage is found....
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC
Bio::Community::IO - Read and write files that describe communities
A Bio::Community::IO object implement methods to read and write communities in formats used by popular programs such as BIOM, GAAS, QIIME, Unifrac, or as generic tab-separated tables. The format should be automatically detected though it can be manua...
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC
Bio::Community::Meta - A metacommunity, or group of communities
The Bio::Community::Meta module represent metacommunities, or groups of communities. This object holds several Bio::Community objects, for example tree communities found at different sites of a forest. Random access to any of the communities is provi...
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC
bc_summarize - Summarize community composition
This script reads a file containing biological communities and summarizes it. In practice, this means transforming community member counts into relative abundance (taking into account any weights that members could have) and merging members that have...
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC
Bio::Community::Tools::Summarizer - Create a summary of communities
Summarize communities in a metacommunity by grouping members based on their taxonomic affiliation first, then by collapsing or removing members with a relative abundance above or below a specified threshold. Summarizing communities should be the last...
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC
Bio::Community::IO::Driver::biom - Driver to read and write files in the sparse BIOM format
This Bio::Community::IO::Driver::biom driver reads and writes files in the BIOM format version 1.0 described at <http://biom-format.org/documentation/format_versions/biom-1.0.html>. Multiple communities and additional metadata can be recorded in a BI...
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC
Bio::Community::IO::Driver::qiime - Driver to read and write files in the QIIME format
This Bio::Community::IO::Driver::qiime driver reads and writes files generated by QIIME (<http://qiime.org/>). Multiple communities can be recorded in a tab-delimited file. Here is an example of QIIME OTU table file: # QIIME v1.3.0 OTU table #OTU ID ...
FANGLY/Bio-Community-0.001008 - 08 Jan 2016 20:06:45 UTC