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https://github.com/IRCAD-IHU/camp
Software multi-purpose reflection library developped by Technogerma Systems France and then by Tegesoft. Provides extra layer of flexibility to programs, and allows them to fully expose their data structures at runtime.
Proper citation: CAMP (RRID:SCR_023981) Copy
https://github.com/rvalieris/parallel-fastq-dump
Software wrapper to speed up downloading process by dividing the work into multiple threads.
Proper citation: parallel-fastq-dump (RRID:SCR_024150) Copy
https://github.com/ggonnella/gfapy
Software library for handling sequence graphs in Python.
Proper citation: GfaPy (RRID:SCR_024030) Copy
https://github.com/FlorianThibord/OptimiR
Software miRSeq data alignment workflow. Used to integrate genetic information to assess the impact of variants on miRNA expression. Used for integrating genome wide genotype data into miRNA sequence alignment analysis.
Proper citation: OptimiR (RRID:SCR_024149) Copy
https://ismrmrd.github.io/apidocs/1.5.0/
Prerequisite for sharing magnetic resonance imaging reconstruction algorithms and code is a common raw data format. This repository describes such common raw data format, which attempts to capture the data fields that are required to describe the magnetic resonance experiment with enough detail to reconstruct images. The repository also contains a C/C++ library for working with the format.
Proper citation: ISMRMRD (RRID:SCR_024043) Copy
https://github.com/FePhyFoFum/phyx
Software phylogenetic tools for unix. Used to perform phylogenetics analyses on trees and sequences. Collection of programs written in C ++ to explore, manipulate, analyze and simulate phylogenetic objects.
Proper citation: Phyx (RRID:SCR_024164) Copy
https://qtltools.github.io/qtltools/
Software tool set for molecular Quantitative Trait Loci discovery and analysis. Allows to go from raw sequence data to collection of molecular Quantitative Trait Loci in few easy-to-perform steps.
Proper citation: qtltools (RRID:SCR_024200) Copy
Open source software for image computation with main focus on high performance volumetric registration, segmentation, and image processing of volumetric medical images.
Proper citation: Plastimatch (RRID:SCR_024168) Copy
Software command line utility and library for lossy compression of PNG images. The conversion reduces file sizes significantly and preserves full alpha transparency. Generated images are compatible with all web browsers and operating systems.
Proper citation: pngquant (RRID:SCR_024169) Copy
https://github.com/ggonnella/rgfa
Ruby library for handling GFA files.
Proper citation: rgfa (RRID:SCR_024323) Copy
https://gitlab.com/RKIBioinformaticsPipelines/QCumber
Software for quality control, quality trimming, adapter removal and sequence content check of NGS data.
Proper citation: qcumber (RRID:SCR_024203) Copy
https://github.com/scottgigante/picopore
Software tool for reducing the storage size of Oxford Nanopore Technologies datasets without loss of functionality.
Proper citation: picopore (RRID:SCR_024161) Copy
Platform independent JAVA software for analysis of sequence based typing methods that generate allelic profiles and their associated epidemiological data.Phylogenetic inference and data visualization for sequence based typing methods.
Proper citation: PHYLOViZ (RRID:SCR_024162) Copy
Open Source software modular Java libraries for cheminformatics.
Proper citation: CDK (RRID:SCR_023985) Copy
https://github.com/gramos/imagetooth
Software library to generate images for odontograms.Allows to choose between png or jpg images.
Proper citation: ImageTooth (RRID:SCR_024039) Copy
https://github.com/rdpstaff/TaxonomyTree
Software library used by other RDP tools.TaxonomyTree building and traversal utility classes.
Proper citation: TaxonomyTree (RRID:SCR_024090) Copy
https://metacpan.org/dist/Sort-Key-Top
Functions available from this module select the top n elements from a list using several common orderings and custom key extraction procedures.
Proper citation: Sort-Key-Top (RRID:SCR_024092) Copy
https://genome.sph.umich.edu/wiki/C++_Library:_libStatGen
Software library as set of classes for creating statistical genetic programs.
Proper citation: libStatGen (RRID:SCR_024093) Copy
https://github.com/rvaser/thread_pool
Software C++ thread pool library.
Proper citation: ThreadPool (RRID:SCR_024094) Copy
https://opencfu.sourceforge.net/
Software to count cell colonies and other circular objects. Used to facilitate enumeration of colony forming unit.
Proper citation: OpenCFU (RRID:SCR_024142) Copy
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