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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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pyomo Resource Report Resource Website 1+ mentions |
pyomo (RRID:SCR_024188) | software resource, software application | Open source Python-based optimization modeling language with diverse set of optimization capabilities. | Python, optimization modeling language, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/pyomo/ | SCR_024188 | 2026-08-01 12:11:23 | 4 | |||||||||
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sitplus Resource Report Resource Website |
sitplus (RRID:SCR_024344) | software resource, software application | Software framework to provide ludic-therapeutic activities for people with disabilities.Offers new forms of interaction based on computer vision, voice and other peripherals to produce result in form of image and sound. Used for continuous and remote interaction, attainable to majority of people with cognitive, sensory and physical disabilities. | interaction based on computer vision, voice, produce result in form of image and sound, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/sitplus/ | SCR_024344 | SITPLUS | 2026-08-01 12:11:24 | 0 | ||||||||
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AI-FANN Resource Report Resource Website |
AI-FANN (RRID:SCR_024060) | software resource, software application | Software Perl wrapper for the Fast Artificial Neural Network library | Perl wrapper, Fast Artificial Neural Network library, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/libai-fann-perl/ | SCR_024060 | AI-FANN - Perl wrapper for the Fast Artificial Neural Network library, libai-fann-perl | 2026-08-01 12:11:23 | 0 | ||||||||
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Bio-Coordinate Resource Report Resource Website |
Bio-Coordinate (RRID:SCR_024063) | software resource, software application | Software application used for working with various biological coordinate systems. See Bio::Coordinate::Collection and Bio::Collection::Pair for examples. | biological coordinate systems, | is listed by: Debian | https://sources.debian.org/src/libbio-coordinate-perl/ | SCR_024063 | Bio-Coordinate - Modules for working with biological coordinates, libbio-coordinate-perl | 2026-08-01 12:11:18 | 0 | |||||||||
|
Ginkgo CADx Resource Report Resource Website |
Ginkgo CADx (RRID:SCR_024031) | software resource, software application | Software advanced DICOM viewer and dicomizer that can also be used to convert png, jpeg, bmp, pdf, tiff to DICOM files. | Digital Imaging and Communication In Medicine, DICOM viewer, dicomizer, convert files, png, jpeg, bmp, pdf, tiff, convert to DICOM files, | is listed by: Debian | Free, Freely available | https://sources.debian.org/src/ginkgocadx/, https://github.com/gerddie/ginkgocadx | SCR_024031 | ginkgocadx | 2026-08-01 12:11:22 | 0 | ||||||||
|
HTSJDK Resource Report Resource Website 1+ mentions |
HTSJDK (RRID:SCR_024036) | software resource, software application | Software implementation of unified Java library for accessing common file formats, such as SAM and VCF, used for high-throughput sequencing data. There are also an number of useful utilities for manipulating HTS data. | accessing common file formats, SAM, VCF, manipulating HTS data, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/htsjdk/, https://github.com/samtools/htsjdk | SCR_024036 | htsjdk | 2026-08-01 12:11:17 | 2 | ||||||||
|
InsPecT Resource Report Resource Website 1+ mentions |
InsPecT (RRID:SCR_024038) | software resource, software application | Software tool to addresses several algorithmic problems in order to identify modified proteins.Software MS/MS database search tool specifically designed to address two crucial needs of the proteomics comminuty: post-translational modification identification and search speed. | addresses algorithmic problems, identify modified proteins, post-translational modification identification, | is listed by: Debian | PMID:16013882 | Free, Available for download, Freely available, | OMICS_02397 | https://sources.debian.org/src/inspect/ | SCR_024038 | Inspect, inspect | 2026-08-01 12:11:23 | 1 | ||||||
|
Kaptive Resource Report Resource Website 1+ mentions |
Kaptive (RRID:SCR_024046) | software resource, software application | Software tool to report information about surface polysaccharide loci for Klebsiella pneumoniae species complex and Acinetobacter baumannii genome assemblies. | report information, surface polysaccharide loci, genome assemblies, | is listed by: Debian | PMID:28348840 | Free, Available for download, Freely available, | OMICS_27932 | https://sources.debian.org/src/kaptive/ | SCR_024046 | kaptive | 2026-08-01 12:11:17 | 9 | ||||||
|
JabRef Resource Report Resource Website 1+ mentions |
JabRef (RRID:SCR_024047) | software resource, software application | Open source, software cross platform citation and reference management tool.Helps to collect and organize sources, find the paper, discover the latest research. | citation and reference, management tool, collect and organize sources, find the paper, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/jabref-plugin-oo/, https://github.com/JabRef/jabref | SCR_024047 | jabref, JabRef Bibliography Management | 2026-08-01 12:11:18 | 3 | ||||||||
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KBibTeX Resource Report Resource Website |
KBibTeX (RRID:SCR_024048) | software resource, software application | Software tool as bibliography editor for KDE. Used in conjunction with Kile. BibTeX editor for KDE. KBibTeX's primary file format is BibTeX as known from LaTeX, but other formats such as RIS, PDF, or RTF can be imported and exported. | bibliography editor for KDE, bibliography editor, BibTeX editor for KDE, | is listed by: Debian | Restricted | https://sources.debian.org/src/kbibtex/ | SCR_024048 | kbibtex | 2026-08-01 12:11:23 | 0 | ||||||||
|
NCBI accession download script Resource Report Resource Website 1000+ mentions |
NCBI accession download script (RRID:SCR_024130) | software resource, software application | Software tool as partner script to the popular ncbi-genome-download script. Allows to download sequences from GenBank/RefSeq by accession through the NCBI ENTREZ API. | download sequences, GenBank/RefSeq, accession through NCBI ENTREZ API, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/ncbi-acc-download/ | SCR_024130 | ncbi-acc-download | 2026-08-01 12:11:18 | 1177 | ||||||||
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Lucy Resource Report Resource Website |
Lucy (RRID:SCR_024099) | software resource, software application | Software tool to clean sequence data from automated DNA sequencers prior to sequence assembly and other downstream uses. | clean sequence data from automated DNA sequencers, Sanger sequencing, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_14823 | https://sources.debian.org/src/lucy/ | SCR_024099 | lucy, Lucy DNA sequence quality and vector trimming tool | 2026-08-01 12:11:18 | 0 | |||||||
|
tacg Resource Report Resource Website |
tacg (RRID:SCR_024374) | software resource, software application | Software tool as command line program that performs many of the common routines in pattern matching in biological strings. It was originally designed for restriction enzyme analysis and while that still forms core of the program, it has been expanded to fill more roles, sort of 'grep' for DNA. | pattern matching in biological strings, restriction enzyme analysis, | is listed by: Debian | PMID:11882250 | Free, Available for download, Freely available, | https://sources.debian.org/src/tacg/ | SCR_024374 | 2026-08-01 12:11:21 | 0 | ||||||||
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VelvetOptimiser Resource Report Resource Website 50+ mentions |
VelvetOptimiser (RRID:SCR_024376) | software resource, software application | Software tool to run as wrapper script for Velvet assembler and to assist with optimising the assembly.Used to search supplied hash value range for optimum, estimates expected coverage and then searches for optimum coverage cutoff. Estimates insert lengths for paired end libraries. Can optimise assemblies by default optimisation condition or by user supplied one. It outputs the results to subdirectory and records all its operations in logfile. | wrapper script, Velvet assembler, optimising assembly, optimum search, search supplied hash value range, optimum coverage cutoff, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_14601 | https://sources.debian.org/src/velvetoptimiser/ https://sources.debian.org/src/vsearch/ | SCR_024376 | velvetoptimiser, perl-velvetoptimiser | 2026-08-01 12:11:23 | 55 | |||||||
|
VisIt Resource Report Resource Website |
VisIt (RRID:SCR_024370) | software resource, software application | Open source software interactive, scalable, visualization, animation and analysis tool. Used to generate visualizations, animate them through time, manipulate them with variety of operators and mathematical expressions, and save resulting images and animations for presentations. | generate visualizations, animation, analysis, save resulting images and animations for presentations, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/visit/ | SCR_024370 | visit | 2026-08-01 12:11:21 | 0 | ||||||||
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MView Resource Report Resource Website 1+ mentions |
MView (RRID:SCR_024129) | software resource, software application | Web-compatible database search or multiple alignment viewer, Software tool as command line utility that extracts and reformats the results of a sequence database search or a multiple alignment, optionally adding HTML markup for web page layout. It can also be used as a filter to extract and convert searches or alignments to common formats. | database search, multiple alignment viewer, | is listed by: Debian | PMID:9632837 | Free, Available for download, Freely available, | OMICS_15907 | https://sources.debian.org/src/mview/ | SCR_024129 | mview | 2026-08-01 12:11:23 | 2 | ||||||
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rambo-k Resource Report Resource Website |
rambo-k (RRID:SCR_024198) | software resource, software application | Software tool for rapid and sensitive removal of background sequences from Next Generation Sequencing data. | removal of background sequences, Next Generation Sequencing data, | is listed by: Debian | PMID:26379285 | Free, Available for download, Freely available, | OMICS_10013 | https://sources.debian.org/src/rambo-k/ | SCR_024198 | 2026-08-01 12:11:22 | 0 | |||||||
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sprai Resource Report Resource Website |
sprai (RRID:SCR_024353) | software resource, software application | Software tool to correct sequencing errors in single pass reads for de novo assembly. | correct sequencing errors, single pass reads, de novo assembly, | is listed by: Debian | Free, Available for download, Freely available, | OMICS_21293 | https://sources.debian.org/src/sprai/ | SCR_024353 | single pass read accuracy improver | 2026-08-01 12:11:20 | 0 | |||||||
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streamlit Resource Report Resource Website 1+ mentions |
streamlit (RRID:SCR_024354) | software resource, software application | Software tool to turn data scripts into shareable web apps in minutes. Faster way to build and share data apps. | turn data scripts into shareable web apps, build and share data apps, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/streamlit/ | SCR_024354 | 2026-08-01 12:11:24 | 6 | |||||||||
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sweed Resource Report Resource Website 1+ mentions |
sweed (RRID:SCR_024357) | software resource, software application | Software tool for likelihood based detection of selective sweeps in thousands of genomes. Software parallel and checkpointable tool that implements composite likelihood ratio test for detecting selective sweeps. | likelihood based detection of selective sweeps, parallel and checkpointable tool, composite likelihood ratio test, detecting selective sweeps, genomes, | is listed by: Debian | PMID:23777627 | Free, Available for download, Freely available, | OMICS_08598 | https://sources.debian.org/src/sweed/ | SCR_024357 | 2026-08-01 12:11:22 | 4 |
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