Kwalitee Issues

use_strict

Add 'use strict' (or its equivalents) to all modules, or convince us that your favorite module is well-known enough and people can easily see the modules are strictly written.

Error: Bio::Tradis::Analysis::Exceptions, Bio::Tradis::Exception

meta_yml_declares_perl_version

If you are using Build.PL define the {requires}{perl} = VERSION field. If you are using MakeMaker (Makefile.PL) you should upgrade ExtUtils::MakeMaker to 6.48 and use MIN_PERL_VERSION parameter. Perl::MinimumVersion can help you determine which version of Perl your module needs.

use_warnings

Add 'use warnings' (or its equivalents) to all modules, or convince us that your favorite module is well-known enough and people can easily see the modules warn when something bad happens.

Error: Bio::Tradis::Analysis::Exceptions, Bio::Tradis::Exception

Modules

Name Abstract Version View
Bio::Tradis Bio-Tradis contains a set of tools to analyse the output from TraDIS analyses. For more information on the TraDIS method, see http://genome.cshlp.org/content/19/12/2308 v1.4.5 metacpan
Bio::Tradis::AddTagsToSeq Takes a BAM file and creates a new BAM with tr and tq tags added to the sequence and quality strings. v1.4.5 metacpan
Bio::Tradis::Analysis::Exceptions Custom exceptions v1.4.5 metacpan
Bio::Tradis::Analysis::InsertSite Take in a bam file and plot the start position of each read v1.4.5 metacpan
Bio::Tradis::CombinePlots Combine multiple plotfiles and generate updated statistics for the combined files v1.4.5 metacpan
Bio::Tradis::CommandLine::AddTags Add given tags to the start of the sequence v1.4.5 metacpan
Bio::Tradis::CommandLine::CheckTags Check for presence of tr tag in BAM file v1.4.5 metacpan
Bio::Tradis::CommandLine::FilterFastqTags Remove given tags from the start of the sequence v1.4.5 metacpan
Bio::Tradis::CommandLine::PlotCombine Combine multiple plotfiles and generate updated statistics for the combined files v1.4.5 metacpan
Bio::Tradis::CommandLine::PlotTradis Generate plots as part of a tradis analysis v1.4.5 metacpan
Bio::Tradis::CommandLine::RemoveFastqTags Remove given tags from the start of the sequence v1.4.5 metacpan
Bio::Tradis::CommandLine::RunMapping Perform mapping v1.4.5 metacpan
Bio::Tradis::CommandLine::TradisAnalysis Perform full tradis analysis v1.4.5 metacpan
Bio::Tradis::CommandLine::TradisBam Adds tags to sequences if tags are present v1.4.5 metacpan
Bio::Tradis::DetectTags Detect tr tags in BAM file v1.4.5 metacpan
Bio::Tradis::Exception Exceptions for input data v1.4.5 metacpan
Bio::Tradis::FilterTags Filter tags in a fastq file v1.4.5 metacpan
Bio::Tradis::Map Perform mapping v1.4.5 metacpan
Bio::Tradis::Parser::Bam Very basic BAM parser. Limited functionality. v1.4.5 metacpan
Bio::Tradis::Parser::Cigar Take in a cigar string and output start and end relative to the reference sequence v1.4.5 metacpan
Bio::Tradis::Parser::Fastq Basic FastQ parser. v1.4.5 metacpan
Bio::Tradis::RemoveTags Remove tags from seqs a fastq file v1.4.5 metacpan
Bio::Tradis::RunTradis Perform all steps required for a tradis analysis v1.4.5 metacpan
Bio::Tradis::Samtools Change samtools syntax depending on version found v1.4.5 metacpan
Bio::Tradis::TradisPlot Generate plots as part of a tradis analysis v1.4.5 metacpan

Other Files

MANIFEST metacpan
META.json metacpan
META.yml metacpan
Makefile.PL metacpan
README metacpan
README.md metacpan
dist.ini metacpan