Search results for "CJFIELDS"
Christopher Fields (CJFIELDS)
Dist::Zilla::PluginBundle::CJFIELDS - Build your modules like CJFIELDS (not sure that's a recommendation)
This is the Dist::Zilla configuration I use to build my distributions, not that I would recommend that....
CJFIELDS/Dist-Zilla-PluginBundle-CJFIELDS-0.06 - 06 Jan 2012 18:33:40 UTC - Search in distribution
bp_einfo - Query einfo to find all available databases or information about a specific database (field information or links to other NCBI databases).
Command line options: -e/--email Valid email (required by NCBI policy) -d/--db/--database NCBI database to query (default = none, which shows available databases) -f/--field print out information about a specific field code (default = none) -l/--link...
CJFIELDS/Bio-EUtilities-1.77 - 09 Mar 2020 18:59:57 UTC - Search in distribution- Bio::DB::EUtilities - Webagent which interacts with and retrieves data from NCBI's eUtils.
- Bio::Tools::EUtilities - NCBI eutil XML parsers.
- Bio::EUtilities - BioPerl low-level API for retrieving and storing data from NCBI eUtils
- 16 more results from Bio-EUtilities »
Bio::Homology::InterologWalk - Retrieve, prioritise and visualize putative Protein-Protein Interactions through interolog mapping
A common activity in computational biology is to mine protein-protein interactions from publicly available databases to build *Protein-Protein Interaction* (PPI) datasets. In many instances, however, the number of experimentally obtained annotated PP...
GGALLONE/Bio-Homology-InterologWalk-0.58 - 01 Feb 2012 12:31:34 UTC - Search in distribution
Bio::Species - Generic species object.
NOTE: This class is planned for deprecation in favor of the simpler Bio::Taxon. Please use that class instead. Provides a very simple object for storing phylogenetic information. The classification is stored in an array, which is a list of nodes in a...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution- Bio::SeqIO::fastq - fastq sequence input/output stream
- Bio::SeqIO::genbank - GenBank sequence input/output stream
- Bio::HandlerBaseI - Interface class for handler methods which interact with any event-driven parsers (drivers).
- 13 more results from BioPerl »
FAST::Bio::Species - Generic species object.
NOTE: This class is planned for deprecation in favor of the simpler FAST::Bio::Taxon. Please use that class instead. Provides a very simple object for storing phylogenetic information. The classification is stored in an array, which is a list of node...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution- FAST::Bio::SeqIO::fastq - fastq sequence input/output stream
- FAST::Bio::SeqIO::genbank - GenBank sequence input/output stream
- FAST::Bio::HandlerBaseI - Interface class for handler methods which interact with any event-driven parsers (drivers).
- 10 more results from FAST »
Bio::Index::Stockholm - Interface for indexing Stockholm files
Indexes Stockholm format alignments such as those from Pfam and Rfam. Returns raw stream data using the ID or a Bio::SimpleAlign object (via Bio::AlignIO). This module also allows for ID parsing using a callback: $inx->id_parser(\&get_id); # make the...
CJFIELDS/Bio-AlignIO-stockholm-1.7.3 - 25 Sep 2018 00:14:27 UTC - Search in distribution- Bio::AlignIO::stockholm - stockholm sequence input/output stream
Bio::SearchIO::blastxml - A SearchIO implementation of NCBI Blast XML parsing.
This object implements a NCBI Blast XML parser. It requires XML::SAX; it is also recommended (for faster parsing) that XML::SAX::ExpatXS or XML::LibXML be installed. Either 'XML::SAX::ExpatXS' or 'XML::LibXML::SAX::Parser' should be set as the defaul...
CJFIELDS/Bio-SearchIO-blastxml-1.70 - 04 Jan 2018 02:12:33 UTC - Search in distribution- Bio::SearchIO::XML::BlastHandler - XML Handler for NCBI Blast XML parsing.
- Bio::SearchIO::XML::PsiBlastHandler - XML Handler for NCBI Blast PSIBLAST XML parsing.
Bio::DB::Taxonomy::sqlite - SQLite-based implementation of Bio::DB::Taxonomy::flatfile
This is an implementation of Bio::DB::Taxonomy which stores and accesses the NCBI taxonomy using a simple SQLite3 database stored locally on disk. With this implementation, one can do the same basic searches as with the 'flatfile' database. A test lo...
CJFIELDS/Bio-DB-Taxonomy-sqlite-1.7.3 - 02 Mar 2020 05:53:54 UTC - Search in distribution
Bio::Tools::Run::Infernal - Wrapper for local execution of cmalign, cmbuild, cmsearch, cmscore
Wrapper module for Sean Eddy's Infernal suite of programs. The current implementation runs cmsearch, cmcalibrate, cmalign, cmemit, cmbuild, cmscore, and cmstat. cmsearch will return a Bio::SearchIO, cmemit a Bio::SeqIO/AlignIO, and cmalign a Bio::Ali...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC - Search in distribution- Bio::Tools::Run::Alignment::Blat
- Bio::Tools::Run::RNAMotif - Wrapper for local execution of rnamotif, rm2ct, rmfmt, rmprune
- Bio::Tools::Run::ERPIN - Wrapper for local execution of the ERPIN suite of programs.
Bio::Tools::Primer3Redux
Bio::Tools::Primer3Redux creates the input files needed to design primers using primer3 and provides mechanisms to access data in the primer3 output files. This module provides a bioperl interface to the program primer3. See http://www-genome.wi.mit....
CJFIELDS/Bio-Tools-Primer3Redux-0.09 - 11 Jun 2011 04:03:42 UTC - Search in distribution
Acme::CPANAuthors::CPAN::MostScripts - Authors with the most number of scripts on CPAN
This module lists 50 CPAN authors with the most number of scripts on CPAN. This list is produced by querying a local mini CPAN mirror using this command: % lcpan authors-by-script-count | head -n 50 Statistics of the CPAN mirror: +-------------------...
PERLANCAR/Acme-CPANAuthors-CPAN-MostScripts-0.005 - 09 Dec 2021 00:06:12 UTC - Search in distribution