Search results for "Bio::Structure::IO"
MCE::Shared - MCE extension for sharing data supporting threads and processes
This module provides data sharing capabilities for MCE supporting threads and processes. MCE::Hobo provides threads-like parallelization for running code asynchronously....
MARIOROY/MCE-Shared-1.886 - 13 Sep 2023 23:57:14 UTC - Search in distribution
Bio::NEXUS
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
Net::SSLeay - Perl bindings for OpenSSL and LibreSSL
This module provides Perl bindings for libssl (an SSL/TLS API) and libcrypto (a cryptography API)....
CHRISN/Net-SSLeay-1.94 - 08 Jan 2024 01:22:27 UTC - Search in distribution
Chemistry::File::PDB - Protein Data Bank file format reader/writer
This module reads and writes PDB files. The PDB file format is commonly used to describe proteins, particularly those stored in the Protein Data Bank (<http://www.rcsb.org/pdb/>). The current version of this module only reads the following record typ...
ITUB/Chemistry-File-PDB-0.23 - 10 May 2009 21:58:55 UTC - Search in distribution
Bio::ToolBox - Tools for querying and analysis of genomic data
The Bio::ToolBox libraries provide a useful interface for working with bioinformatic data. Many bioinformatic data analysis revolves around working with tables of information, including lists of genomic annotation (genes, promoters, etc.) or defined ...
TJPARNELL/Bio-ToolBox-1.691 - 13 Oct 2022 18:07:52 UTC - Search in distribution- Bio::ToolBox::Data::Stream - Read, Write, and Manipulate Data File Line by Line
- Bio::ToolBox::Data::file - File functions to Bio:ToolBox::Data family
Bio::BLAST::Database - work with formatted BLAST databases
Each object of this class represents an NCBI-formatted sequence database on disk, which is a set of files, the exact structure of which varies a bit with the type and size of the sequence set. This is mostly an object-oriented wrapper for using NCBI'...
RBUELS/Bio-BLAST-0.4 - 12 Sep 2011 15:47:19 UTC - Search in distribution
Prospect::Thread - Representation of a Prospect thread.
Prospect::Thread -- Representation of a full Prospect thread this is really just a set of methods associated with the hash structure returned by XML::Simple....
REECE/Prospect-0.92 - 14 Nov 2003 13:16:46 UTC - Search in distribution
Bio::Event::EventHandlerI - An Event Handler Interface
This interface describes the basic methods required for EventHandlers. These are essentially SAX methods....
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution- Bio::Root::Storable - Safely store/retrieve objects from disk
- Bio::Annotation::TagTree - AnnotationI with tree-like hierarchal key-value relationships ('structured tags') that can be represented as simple text.
- Bio::Matrix::Mlagan - A generic matrix with mlagan fields
- 3 more results from BioPerl »
FAST::Bio::Event::EventHandlerI - An Event Handler Interface
This interface describes the basic methods required for EventHandlers. These are essentially SAX methods....
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution- FAST::Bio::Annotation::TagTree - AnnotationI with tree-like hierarchal key-value relationships ('structured tags') that can be represented as simple text.
Bio::Prospect::Thread - Representation of a Prospect thread.
Bio::Prospect::Thread -- Representation of a full Prospect thread this is really just a set of methods associated with the hash structure returned by XML::Simple....
REECE/Bio-Prospect-1.04 - 19 Nov 2003 06:34:27 UTC - Search in distribution
Bio::Tools::Run::Alignment::TCoffee - Object for the calculation of a multiple sequence alignment from a set of unaligned sequences or alignments using the TCoffee program
Note: this DESCRIPTION only documents the (Bio)perl interface to TCoffee. Helping the module find your executable You will need to enable TCoffee to find the t_coffee program. This can be done in (at least) three ways: 1. Make sure the t_coffee execu...
CDRAUG/Bio-Tools-Run-Alignment-TCoffee-1.7.4 - 09 Jul 2018 18:31:30 UTC - Search in distribution
Bio::Variation::IO - Handler for sequence variation IO Formats
Bio::Variation::IO is a handler module for the formats in the Variation IO set (eg, Bio::Variation::IO::flat). It is the officially sanctioned way of getting at the format objects, which most people should use. The structure, conventions and most of ...
CJFIELDS/Bio-Variation-1.7.5 - 06 Jan 2020 19:59:16 UTC - Search in distribution
Bio::Tools::Run::Phylo::PAML::Codeml - Wrapper aroud the PAML program codeml
This is a wrapper around the codeml program of PAML (Phylogenetic Analysis by Maximum Likelihood) package of Ziheng Yang. See http://abacus.gene.ucl.ac.uk/software/paml.html for more information. This module is more about generating the properl codem...
CDRAUG/Bio-Tools-Phylo-PAML-1.7.3 - 01 Jul 2018 12:36:38 UTC - Search in distribution- Bio::Tools::Run::Phylo::PAML::Baseml - Wrapper aroud the PAML program baseml
Bio::Tools::Run::Phylo::Phylip::SeqBoot - Wrapper for the phylip program SeqBoot
Wrapper for seqboot from the phylip package by Joseph Felsentein. Taken from phylip doc... "SEQBOOT is a general boostrapping tool. It is intended to allow you to generate multiple data sets that are resampled versions of the input data set. SEQBOOT ...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC - Search in distribution
Bio::Gonzales::Range::Overlap - find overlapping ranges
A @range has the form "($from, $to, @additional elements)". Lists of ranges have the form "([$from, $to, @add_elems], [$from, $to, @add_elems], ...)"....
JWB/Bio-Gonzales-0.083 - 02 Jan 2021 23:10:48 UTC - Search in distribution- Bio::Gonzales::Util::Cerial - convenience functions for yaml and json IO
Bio::Phylo::NeXML::DOM - XML DOM support for Bio::Phylo
This module adds "to_dom" methods to Bio::Phylo::NeXML::Writable classes, which provide NeXML-valid objects for document object model manipulation. DOM formats currently available are "XML::Twig" and "XML::LibXML". For any "XMLWritable" object, use "...
RVOSA/Bio-Phylo-v2.0.1 - 30 Oct 2017 19:50:35 UTC - Search in distribution- Bio::Phylo::Unparsers::Pagel - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Unparsers::Phylip - Serializer used by Bio::Phylo::IO, no serviceable parts inside
- Bio::Phylo::Parsers::Adjacency - Parser used by Bio::Phylo::IO, no serviceable parts inside
- 1 more result from Bio-Phylo »