Search results for "Bio::Index::Blast"
Bio::Index::Blast - Indexes Blast reports and supports retrieval based on query accession(s)
This object allows one to build an index on a blast file (or files) and provide quick access to the blast report for that accession. This also allows for ID parsing using a callback: $inx->id_parser(\&get_id); # make the index $inx->make_index($file_...
CJFIELDS/BioPerl-1.7.8 - 03 Feb 2021 05:15:14 UTC - Search in distribution- Bio::Index::BlastTable - Indexes tabular Blast reports (-m 8 or -m 9 format) and supports retrieval based on query accession(s)
- Bio::Matrix::PSM::ProtMatrix - SiteMatrixI implementation, holds a position scoring matrix (or position weight matrix) with log-odds scoring information.
- Bio::SearchIO::Writer::TextResultWriter - Object to implement writing a Bio::Search::ResultI in Text.
- 1 more result from BioPerl »
bioaln - Alignment manipulations based on BioPerl
bioaln performs common, routine manipulations of sequence alignments based on BioPerl modules including Bio::AlignIO, Bio::SimpleAlign and Bio::Align::Utilities. By default, bioaln assumes that both the input and the output files are in CLUSTALW form...
YZHERNAND/Bio-BPWrapper-1.15 - 27 Feb 2024 16:55:31 UTC - Search in distribution
Bio::Index::Hmmer - indexes HMMER reports and supports retreival based on query
This object allows one to build an index on a HMMER file (or files) and provide quick access to the HMMER report for that accession. For best results 'use strict'. You can also set or customize the unique key used to retrieve by writing your own func...
CJFIELDS/Bio-SearchIO-hmmer-1.7.3 - 25 Sep 2018 00:26:52 UTC - Search in distribution
Bio::Tools::Run::TribeMCL
TribeMCL is a method for clustering proteins into related groups, which are termed 'protein families'. This clustering is achieved by analysing similarity patterns between proteins in a given dataset, and using these patterns to assign proteins into ...
CJFIELDS/BioPerl-Run-1.007003 - 08 Feb 2019 19:55:33 UTC - Search in distribution
Bio::Graphics::Panel - Generate GD images of Bio::Seq objects
The Bio::Graphics::Panel class provides drawing and formatting services for any object that implements the Bio::SeqFeatureI interface, including Ace::Sequence::Feature and Das::Segment::Feature objects. It can be used to draw sequence annotations, ph...
CJFIELDS/Bio-Graphics-2.40 - 16 Dec 2016 04:50:36 UTC - Search in distribution
Bio::Polloc::GroupCriteria - Rules to group loci
Takes loci and returns groups of loci based on certain rules. If created via .bme (.cfg) files, it is defined in the "[ RuleGroup ]" and "[ GroupExtension ]" namespaces....
LRR/Polloc-1.5.3b - 29 Jun 2011 02:32:21 UTC - Search in distribution
Bio::FastParsers::Blast::Xml::Hit - NCBI BLAST DTD-derived internal class
This class implements the "Hit" level of the XML BLAST parser....
DBAURAIN/Bio-FastParsers-0.221230 - 03 May 2022 21:00:40 UTC - Search in distribution- Bio::FastParsers::Blast::Xml::Iteration - NCBI BLAST DTD-derived internal class
- Bio::FastParsers::Blast::Xml::BlastOutput - NCBI BLAST DTD-derived internal class
FAST::Bio::SearchIO::Writer::TextResultWriter - Object to implement writing a FAST::Bio::Search::ResultI in Text.
This object implements the SearchWriterI interface which will produce a set of Text for a specific FAST::Bio::Search::Report::ReportI interface. You can also provide the argument -filters => \%hash to filter the at the hsp, hit, or result level. %has...
DHARD/FAST-1.06 - 21 Apr 2015 08:04:25 UTC - Search in distribution- FAST::Bio::SearchIO::Writer::HTMLResultWriter - write a FAST::Bio::Search::ResultI in HTML