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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
SPINAL Resource Report Resource Website 50+ mentions |
SPINAL (RRID:SCR_012080) | software resource | Algorithm for the problem of globally aligning a pair of protein-protein interaction (PPI) networks. | standalone software, c++ |
is listed by: OMICtools has parent organization: Google Code |
PMID:23413436 | Free, Public | OMICS_04881 | SCR_012080 | 2026-09-19 12:52:24 | 73 | ||||||||
|
SketchEl Resource Report Resource Website |
SketchEl (RRID:SCR_012082) | software resource | An interactive chemical molecule sketching tool, and molecular spreadsheet data entry application. | applet, mac os x, unix/linux, windows, java, javascript |
is listed by: OMICtools has parent organization: SourceForge |
GNU General Public License | OMICS_04982 | SCR_012082 | 2026-09-19 12:52:24 | 0 | |||||||||
|
HopeMap Resource Report Resource Website |
HopeMap (RRID:SCR_012081) | software resource | A connected-components based fast algorithm for network alignment. | standalone software |
is listed by: OMICtools has parent organization: SourceForge |
PMID:23710435 | OMICS_04896 | SCR_012081 | 2026-09-19 12:52:24 | 0 | |||||||||
|
MCDL Resource Report Resource Website 1+ mentions |
MCDL (RRID:SCR_012084) | software resource | A small Java molecular viewer/editor for chemical structures, stored in Modular Chemical Descriptor Language linear notation. | applet, mac os x, unix/linux, windows, java |
is listed by: OMICtools has parent organization: SourceForge |
OMICS_05001 | SCR_012084 | 2026-09-19 12:52:24 | 2 | ||||||||||
|
GLARE Resource Report Resource Website 1+ mentions |
GLARE (RRID:SCR_012083) | software resource | A software that facilitates and improves the design of chemical combinatorial libraries. | standalone software |
is listed by: OMICtools has parent organization: SourceForge |
PMID:20981532 | Free, Public | OMICS_04992 | SCR_012083 | Global Library Assessment of REagents | 2026-09-19 12:52:24 | 5 | |||||||
|
MFPaQ Resource Report Resource Website 10+ mentions |
MFPaQ (RRID:SCR_012049) | software resource | Software that allows fast and user-friendly verification of Mascot result files, as well as data quantification using isotopic labeling methods (SILAC/ICAT) or label free approaches (spectral counting, MS signal comparison). | standalone software, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: SourceForge |
PMID:17533220 | biotools:mfpaq, OMICS_02495 | https://bio.tools/mfpaq | SCR_012049 | Mascot File Parsing and Quantification | 2026-09-19 12:52:23 | 14 | |||||||
|
thermo-msf-parser Resource Report Resource Website |
thermo-msf-parser (RRID:SCR_012053) | software resource | A Java library to parse the msf files that constitute the output of Proteome Discoverer. | standalone software, java |
uses: Proteome Discoverer is listed by: OMICtools has parent organization: Google Code |
PMID:21714566 | Apache License | OMICS_03350 | SCR_012053 | 2026-09-19 12:52:23 | 0 | ||||||||
|
SearchGUI Resource Report Resource Website 100+ mentions |
SearchGUI (RRID:SCR_012054) | software resource | Software providing a user-friendly, lightweight and open-source graphical user interface for configuring and running the freely available OMSSA and X!Tandem search engines simultaneously. | mac os x, unix/linux, windows |
is listed by: OMICtools has parent organization: Google Code |
PMID:21337703 | Apache License | OMICS_03352 | SCR_012054 | 2026-09-19 12:52:23 | 157 | ||||||||
|
ProteoWizard Resource Report Resource Website 1000+ mentions |
ProteoWizard (RRID:SCR_012056) | software resource | Software that enables rapid tool creation by providing a robust, pluggable development framework that simplifies and unifies data file access, and performs standard proteomics and LCMS dataset computations. | standalone software, c++ |
is listed by: OMICtools is related to: Skyline has parent organization: SourceForge |
PMID:23051804 | Apache License | OMICS_03354 | SCR_012056 | 2026-09-19 12:52:23 | 3729 | ||||||||
|
ADTEx Resource Report Resource Website 50+ mentions |
ADTEx (RRID:SCR_012059) | software resource | A software tool for copy number variation (CNV) detection for whole-exome data from paired tumour/matched normal samples. | standalone software, python, r |
is listed by: OMICtools has parent organization: SourceForge |
PMID:23368785 | GNU General Public License | OMICS_03365 | SCR_012059 | 2026-09-19 12:52:23 | 95 | ||||||||
|
multiplierz Resource Report Resource Website 1+ mentions |
multiplierz (RRID:SCR_012058) | software resource | An open-source Python-based environment that provides a scriptable framework for efficient access to manufacturers'' proprietary data files via mzAPI. | python, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: SourceForge |
PMID:19874609 | GNU Lesser General Public License | biotools:multiplierz, OMICS_03360 | https://bio.tools/multiplierz | SCR_012058 | 2026-09-19 12:52:23 | 7 | |||||||
|
TE-locate Resource Report Resource Website 1+ mentions |
TE-locate (RRID:SCR_012063) | software resource | A software tool to locate all copies of sequences in a reference sequence using read-pairs. | java, perl |
is listed by: OMICtools has parent organization: SourceForge |
PMID:24832231 | OMICS_03507 | SCR_012063 | 2026-09-19 12:52:23 | 1 | |||||||||
|
Bpredictor Resource Report Resource Website |
Bpredictor (RRID:SCR_012065) | software resource | A software tool to predict the conformational epitopes from 3D structures. | standalone software |
is listed by: OMICtools has parent organization: Google Code |
PMID:21846404 | OMICS_04206 | SCR_012065 | 2026-09-19 12:52:23 | 0 | |||||||||
|
LAITOR Resource Report Resource Website 1+ mentions |
LAITOR (RRID:SCR_012101) | software resource | A text mining software developed to find co-occurrence of biological entities (gene/protein terms) together with biointeractions and concepts term from customized dictionaries. | standalone software |
is listed by: OMICtools has parent organization: SourceForge |
PMID:20122157 | GNU General Public License | OMICS_05240 | SCR_012101 | 2026-09-19 12:52:24 | 1 | ||||||||
|
MatNMR Resource Report Resource Website 10+ mentions |
MatNMR (RRID:SCR_012060) | software resource | A highly flexible software toolbox for processing 1D and 2D NMR and EPR spectra under MATLAB, creating high-quality 1D, 2D or 3D plots from the spectra and printing them in every type of format that is supported by MATLAB. | standalone software |
is listed by: OMICtools has parent organization: SourceForge |
PMID:17448713 | OMICS_03375 | SCR_012060 | 2026-09-19 12:52:23 | 16 | |||||||||
|
GPU-Meta-Storms Resource Report Resource Website 1+ mentions |
GPU-Meta-Storms (RRID:SCR_012029) | GPU-Meta-Storms | software resource | Optimized GPU-based software to efficiently measure the quantitative phylogenetic similarity among massive amount of microbial community samples. | c++, parallel computation 4, cuda, structure similarity, metagenomic, phylogenetic, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: Chinese Academy of Sciences; Beijing; China |
PMID:24363375 | OMICS_02187, biotools:meta-storms | https://bio.tools/meta-storms | SCR_012029 | 2026-09-19 12:52:23 | 1 | |||||||
|
DIYABC Resource Report Resource Website 100+ mentions |
DIYABC (RRID:SCR_012031) | DIYABC | software resource | Software to make Approximate Bayesian Computation inferences about population history using Single Nucleotide Polymorphism, DNA sequence and microsatellite data. | population, single nucleotide polymorphism, dna sequence, microsatellite |
is listed by: OMICtools has parent organization: INRA - French National Institute for Agricultural Research; Paris; France |
PMID:24389659 | Free for academic use | OMICS_02197 | SCR_012031 | Do It Yourself ABC, DIYABC - Do it yourself ABC | 2026-09-19 12:52:23 | 263 | ||||||
|
FamAnn Resource Report Resource Website |
FamAnn (RRID:SCR_012032) | FamAnn | software resource | An automated variant annotation pipeline designed for facilitating target discovery for family-based sequencing studies. | is listed by: OMICtools | PMID:24395755 | GNU General Public License, v2 | OMICS_02204 | SCR_012032 | 2026-09-19 12:52:23 | 0 | ||||||||
|
Algal Functional Annotation Tool Resource Report Resource Website |
Algal Functional Annotation Tool (RRID:SCR_012034) | Algal Functional Annotation Tool | analysis service resource, data analysis service, data or information resource, database, production service resource, service resource | Tools to search gene lists for functional term enrichment as well as to dynamically visualize proteins onto pathway maps. Additionally, integrated expression data may be used to discover similarly expressed genes based on a starting gene of interest. | gene, pathway, visualization, annotation, function, protein family, ontology, protein, genomics |
is listed by: OMICtools is related to: Gene Ontology is related to: KEGG is related to: MetaCyc is related to: Reactome is related to: Pfam is related to: InterPro has parent organization: University of California at Los Angeles; California; USA |
DOE ; NAABB ; IGP ; Air Force Office of Scientific Research |
PMID:21749710 | OMICS_02226 | SCR_012034 | 2026-09-19 12:52:23 | 0 | |||||||
|
MetExtract Resource Report Resource Website 10+ mentions |
MetExtract (RRID:SCR_012048) | software resource | A software tool for scientists working with stable isotopic labelling and high resolution liquid chromatography mass spectrometry. | c++ |
is listed by: OMICtools has parent organization: Google Code |
PMID:22238263 | MIT License | OMICS_02639 | SCR_012048 | 2026-09-19 12:52:23 | 14 |
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