Search results for "Bio::Annotation"

Bio::Annotation::Tree - Provide a tree as an annotation to a Bio::AnnotatableI object River stage two • 60 direct dependents • 65 total dependents

Provides a Bio::AnnotationI object which contains a Bio::Tree::TreeI, which can be added to a Bio::AnnotationCollectionI, which in turn be attached to a Bio::AnnotatableI (typically a Bio::AlignI object)...

CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution

FAST::Bio::Annotation::DBLink - untyped links between databases River stage zero No dependents

Provides an object which represents a link from one object to something in another database without prescribing what is in the other database. Aside from FAST::Bio::AnnotationI, this class also implements FAST::Bio::IdentifiableI....

DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution

Bio::AutomatedAnnotation - Automated annotation of assemblies River stage zero No dependents

VOFFFORD/Bio-AutomatedAnnotation-1.182770 - 04 Oct 2018 13:47:56 UTC - Search in distribution

Bio::Roary::ParseGFFAnnotationRole - A role for parsing a gff file efficiently River stage zero No dependents

AJPAGE/Bio-Roary-3.13.0 - 06 Nov 2019 21:32:21 UTC - Search in distribution

Bio::Das - Interface to Distributed Annotation System River stage zero No dependents

Bio::Das provides access to genome sequencing and annotation databases that export their data in Distributed Annotation System (DAS) format version 1.5. This system is described at http://biodas.org. Both unencrypted (http:) and SSL-encrypted (https:...

LDS/Bio-Das-1.17 - 29 Jun 2010 19:43:55 UTC - Search in distribution

Bio::DB::GFF - Storage and retrieval of sequence annotation data River stage one • 2 direct dependents • 2 total dependents

Bio::DB::GFF provides fast indexed access to a sequence annotation database. It supports multiple database types (ACeDB, relational), and multiple schemas through a system of adaptors and aggregators. The following operations are supported by this mo...

CJFIELDS/Bio-DB-GFF-1.7.4 - 08 Jan 2020 20:41:58 UTC - Search in distribution

Perl6::Form - Implements the Perl 6 'form' built-in River stage one • 4 direct dependents • 4 total dependents

Formats are Perl 5's mechanism for creating text templates with fixed-width fields. Those fields are then filled in using values from prespecified package variables. Unlike Perl 5, Perl 6 doesn't have a "format" keyword. Or the associated built-in fo...

DCONWAY/Perl6-Form-0.090 - 09 Jan 2019 00:23:27 UTC - Search in distribution

data2wig.pl - A program to convert a generic data file into a wig file. River stage zero No dependents

This program will convert any tab-delimited data text file into a wiggle formatted text file. This requires that the file contains not only the scores bu also chromosomal coordinates, i.e. chromosome, start, and (optionally) stop. The program should ...

TJPARNELL/Bio-ToolBox-1.691 - 13 Oct 2022 18:07:52 UTC - Search in distribution

wgs2ncbi - prepares whole genome sequencing projects for submission to NCBI River stage zero No dependents

"wgs2ncbi" is a script that helps users prepare submissions of annotated, whole genomes to NCBI. It does this by performing a number of actions that need to be taken in sequence. Each of these actions need to be invoked as a subcommand (i.e. "wgs2ncb...

RVOSA/Bio-WGS2NCBI-v0.1.2 - 23 Jan 2020 15:54:29 UTC - Search in distribution

pod::FAQ River stage zero No dependents

LDS/GBrowse-2.56 - 15 Jan 2017 21:29:11 UTC - Search in distribution

GO::AppHandle - Gene Ontology Data API handle River stage zero No dependents

This is a module for accessing Gene Ontology data sources, e.g the GO relational database. It defines a set of methods that provide a consistent interface independent of the way the GO data is stored. For an explanation of the GO project, please visi...

SJCARBON/go-db-perl-0.04 - 21 Dec 2009 21:56:44 UTC - Search in distribution

share::Exegesis::E07 River stage one • 2 direct dependents • 2 total dependents

HINRIK/Perl6-Doc-0.47 - 06 Dec 2010 03:25:27 UTC - Search in distribution

Manual River stage zero No dependents

LMEUNIER/Bio-Palantir-0.211420 - 22 May 2021 20:37:07 UTC - Search in distribution
  • Bio::Palantir - core classes and utilities for Bio::Palantir
  • Bio::Palantir::Refiner - front-end class for Bio::Palantir::Refiner module, wich handles the refinement of NRPS/PKS BGC annotations

Bio::Glite - G-language Genome Analysis Environment REST service interface module River stage zero No dependents

The G-language GAE fully supports most sequence databases. Stored annotation information: LOCUS $gb->{LOCUS}->{id} -accession number $gb->{LOCUS}->{length} -length of sequence $gb->{LOCUS}->{nucleotide} -type of sequence ex. DNA, RNA $gb->{LOCUS}->{c...

GAOU/Bio-Glite-0.10 - 30 Mar 2009 14:38:31 UTC - Search in distribution

bp_genbank_ref_extractor - Retrieves all related sequences for a list of searches on Entrez gene River stage zero No dependents

This script searches on *Entrez Gene* database and retrieves not only the gene sequence but also the related transcript and protein sequences. The gene UIDs of multiple searches are collected before attempting to retrieve them so each gene will only ...

CJFIELDS/Bio-EUtilities-1.77 - 09 Mar 2020 18:59:57 UTC - Search in distribution

format-tree.pl - Format (and annotate) trees for printing River stage one • 9 direct dependents • 9 total dependents

DBAURAIN/Bio-MUST-Core-0.240390 - 08 Feb 2024 21:02:36 UTC - Search in distribution

Bio::NEXUS River stage one • 1 direct dependent • 1 total dependent

This User Manual explains the motivation for developing the Bio::NEXUS library, the principles underlying its organization, and its use in developing software for evolutionary informatics. This manual also provides information on how to use two demon...

ARLIN/Bio-NEXUS-0.78 - 10 Feb 2012 13:31:13 UTC - Search in distribution

Data::Type::RFC - request for comments on the design of Data::Type River stage zero No dependents

This is the API documentation. Every candidate datatype must be sustain the following conventions before it should be released. Comments are requested....

MUENALAN/Data-Type-0.02.02 - 31 Dec 2009 13:48:47 UTC - Search in distribution
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