Curator Dashboard

Functions available from this module select the top n elements from a list using several common orderings and custom key extraction procedures.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software C++ htslib/bwa-mem/fermi interface for interrogating sequence data

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software library used by other RDP tools.TaxonomyTree building and traversal utility classes.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

SIMD Smith-Waterman C/C++ library for use in genomic applications. SSW is a fast implementation of the Smith-Waterman algorithm, which uses the Single-Instruction Multiple-Data (SIMD) instructions to parallelize the algorithm at the instruction level. SSW library provides an API that can be flexibly used by programs written in C, C++ and other languages.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software C++11 library for next-gen sequence quality control and assessment.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software library that exports C++ mmCIF accessors to Python.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software core library and API of the Medical Image NetCDF toolkit.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software reference library for Image Cytometry Standard, an open standard for writing images of any dimensionality and data type to file, together with associated information regarding the recording equipment or recorded subject.Image Cytometry Standard file reading and writing.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software repository contains java code for NeXML processing.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software C library with bioinformatic focus optimised for speed and clean API.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software package provides low-level interface to the primer3 and epcr binary executables and supplies methods to return the results. Because primer3 and e-PCR are only available for Unix-like operating systems, Bio-PrimerDesigner offers the ability to accessing the primer3 binary via a remote server. Local installations of primer3 or e-PCR on Unix hosts are also supported.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software toolkit for gray scale medical image analysis. Provides combination of command line tools, plug-ins, and libraries that make it possible to run image processing tasks interactively in command shell and prototype algorithms as shell scripts. MIA is build around a plug-in structure that makes it easy to add functionality without compromising the original code base, and it makes use of wide variety of external libraries that provide additional functionality.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software C++ class library for interpreting data files in NEXUS format. NEXUS Class Library software package is collection of C++ classes designed to simplify interpreting data files written in the NEXUS format used by many computer programs for phylogenetic analyses.NEXUS format allows different programs to share the same data files, even though none of the programs can interpret all of the data stored.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software library that implements lightweight suffix array construction algorithm. Provides C API to construct suffix array and Burrows-Wheeler transformed string from given string over constant size alphabet. The algorithm runs in O(n log n) worst-case time using only 5n+O(1) bytes of memory space, where n is the length of the string.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software C/C++ (and Python) library for sequence alignment using edit (Levenshtein) distance.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software collection of data structures and algorithms. Contains I/O classes (single byte and UTF-8), bitio classes (input, output and various forms of bit level manipulation), text indexing classes (suffix and LCP array, fulltext and minute (FM), ...), BAM sequence alignment files input/output (simple and collating) and many lower level support classes.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Java library of data structures and algorithms.Provides some basic data structures and algorithms used by SplitsTree, Dendroscope and MEGAN.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software library for processing of biomedical signals. Provides generic storage for biosignals, such as EEG, ECG, MEG. C++ implementation of GDF - " general dataformat for biosignals" version V2.20.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Software Fast Analysis of Sequences Toolbox (FAST) is a set of UNIX utilities (for example fasgrep, fascut, fashead and fastr) that extends the UNIX toolbox paradigm to bioinformatic sequence records.FAST workflows are designed for serial processing of flatfile biological sequence record databases per-sequence, rather than per-line, through UNIX pipelines. The default data exchange format is multifasta (specifically, a restriction of BioPerl FastA format). FASTQ format is supported. FAST is designed for learnability, interoperability, interface consistency, rapid prototyping, fine-tuned control, and reproducibility. FAST tools expose the power of Perl and BioPerl to users in an easy-to-learn command-line paradigm.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth

Relational database schema that underlies many GMOD installations. It is capable of representing many of the general classes of data frequently encountered in modern biology such as sequence, sequence comparisons, phenotypes, genotypes, ontologies, publications, and phylogeny. It has been designed to handle complex representations of biological knowledge and should be considered one of the most sophisticated relational schemas currently available in molecular biology. The price of this capability is that the new user must spend some time becoming familiar with its fundamentals.

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• SciCrunch
• 3 years ago - submitted by Edyta Vieth