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Software C library for entropy measurement of byte streams and other data.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software library for generic access to chipcard readers and cards

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software object for calculation of multiple sequence alignment from set of unaligned sequences or alignments using the TCoffee program.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package used to parse output from the PAML programs codeml, baseml, basemlg, codemlsites and yn00. You can use the Bio-Tools-Run-Phylo-PAML modules to actually run some of the PAML programs, but this module is only useful to parse the output.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Perl extension for reading and writting SCF sequence files.This module provides Perl interface to SCF DNA sequencing files. It has both tied hash and an object-oriented interfaces. It provides the ability to read fields from SCF files and limited ability to modify them and write them back.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package for performing multiple sequence alignment from set of unaligned sequences and/or sub-alignments by means of the clustalw program.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Perl interface to SamTools library for DNA sequencing.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software C++ library for parsing several formats in bioinformatics. C++ header only parsing library for several bioinformatics formats (FASTA/Q, MHAP/PAF/SAM), with support for zlib compressed files.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package which interacts with and retrieves data from NCBI's eUtils. This distribution encompasses low-level API for interacting with (and storing) information from NCBI's eUtils interface. See Bio::DB::EUtilities for the query API to retrieve data from NCBI, and Bio::Tools::EUtilities for the general class storage system. Note this may change to utilize the XML schema for each class at some point, though we will attempt to retain current functionality for backward compatibility unless this becomes problematic.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software application used for working with various biological coordinate systems. See Bio::Coordinate::Collection and Bio::Collection::Pair for examples.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software memory efficient bioinformatics library written in D programming language whose aim is to provide platform for developing high performance computational biology applications using the D programming language through automatic parallelization of tasks where possible and by avoiding unnecessary memory allocations.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package to generate GD images of Bio::Seq objects.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Perl wrapper for the Fast Artificial Neural Network library

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Standard object-relational mapping layer for use with GMOD Chado database schema. This layer is implemented with DBIx::Class, generated with the help of DBIx::Class::Schema::Loader module.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software tool to correlate mapped genes with the predicted species of WGS samples, where this allows for identification of genes in samples which have been poorly sequenced or high accuracy predictions for samples with contamination. KmerResistance has one dependency, namely KMA to perform the mapping, which is also freely available.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software provides an interface to the ACEDB object-oriented database. Both read and write access is provided, and ACE objects are returned as similarly-structured Perl objects. Multiple databases can be opened simultaneously.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software regular expression based Perl Parser for NCBI Entrez Gene genome databases. Parses ASN.1-formatted Entrez Gene record and returns data structure that contains all data items from gene record.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package implements two significance tests for comparing digital gene expression profiles. They provide two programs: Kemp for the frequentist test and Basu for the Bayesian test, and some auxiliary scripts.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software mapping method designed to map raw reads directly against redundant databases, in an ultra-fast manner using seed and extend.Used for aligning high quality reads against highly redundant databases, where unique matches often does not exist. Works for long low quality reads as well, such as those from Nanopore. Non-unique matches are resolved using the "ConClave" sorting scheme, and a consensus sequence are outputtet in addition to other common attributes, based on users demands.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

C++ software designed to infer V(D)J recombination related processes from sequencing data.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth