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"name": "Gigwa",
"description": "The Gigwa application, which stands for “Genotype Investigator for Genome-Wide Analyses”, provides an easy and intuitive way to explore large amounts of genotyping data by filtering it not only on the basis of variant features, including functional annotations, but also matching genotype patterns. It is a fairly lightweight, web-based, platform-independent solution that may be deployed on a workstation or as a data portal. It allows to feed a MongoDB database with VCF, PLINK or HapMap files containing up to tens of billions of genotypes, and provides a user-friendly interface to filter data in real time. Gigwa provides the means to export filtered data into several popular formats and features connectivity not only with online genomic tools, but also with standalone software such as FlapJack or IGV. Additionnally, Gigwa-hosted datasets are interoperable via two standard REST APIs: GA4GH and BrAPI.",
"homepage": "http://www.southgreen.fr/content/gigwa",
"biotoolsID": "Gigwa",
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],
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"http://edamontology.org/topic_2885",
"http://edamontology.org/topic_3071"
],
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"10.1093/GIGASCIENCE/GIZ051",
"10.1186/s13742-016-0131-8"
],
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],
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{
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],
"name": "Guilhem Sempéré",
"email": "guilhem.sempere@cirad.fr",
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],
"tool_licence": "AGPL-3.0",
"documentation": "http://gigwa.southgreen.fr/gigwa/docs/gigwa_docs.html",
"maturity": "Mature",
"cost": "Free of charge",
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"citations": null,
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"last_update": "2020-09-14T08:25:17Z",
"teams": [
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],
"source_repository": "https://github.com/SouthGreenPlatform/Gigwa2"
},
{
"id": 144,
"name": "SynTView",
"description": "Comparative and interactive viewer for microbial genomes, designed to run as either a web-based tool (Flash technology) or a desktop application (AIR environment). The basis of the program is a generic genome browser with sub-maps holding information about genomic objects. The software is characterized by the presentation of syntenic organisations of microbial genomes and the visualization of polymorphism data along these genomes; these features are accessible to the user in an integrated way.",
"homepage": "http://genopole.pasteur.fr/SynTView/",
"biotoolsID": "syntview",
"biotoolsCURIE": "biotools:syntview",
"tool_type": [
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"Desktop application"
],
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"scientific_topics": [
"http://edamontology.org/topic_3168",
"http://edamontology.org/topic_0797"
],
"primary_publication": [
"10.1186/1471-2105-14-277"
],
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"Linux",
"Windows",
"Mac"
],
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{
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],
"name": null,
"email": "plechat@pasteur.fr",
"url": null,
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}
],
"tool_licence": "LGPL-3.0",
"documentation": "http://hub18.hosting.pasteur.fr/SynTView/documentation/",
"maturity": "Mature",
"cost": "Free of charge",
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"last_update": "2021-05-19T14:52:04Z",
"teams": [
"Pasteur HUB"
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},
{
"id": 238,
"name": "TOXsIgN",
"description": "The TOXicogenomic sIgNature (TOXsIgN) is a cross-species resource that supports online submission, storage, and retrieval of TOXicogenomic sIgNatures. TOXsIgN aims at complementing existing resources by acting as a distribution hub for the community. One of its unique features is its ability to archive heterogeneous data. TOXsIgN thus allows users to upload lists of genes positively (overexpressed for transcriptomic assays) affected and negatively (underexpressed) affected from distinct –omics experiments (e.g., transcriptomics, proteomics, or epigenomics). It also provides users with a working environment containing a powerful search engine as well as bioinformatics/biostatistics modules that enable cross-species and cross-technology signature comparisons or enrichment analyses. TOXsIgN is thus intended to serve as a warehouse for toxicogenomics and predictive toxicology tools simultaneously based on and able to analyze the overall set of signatures deposited by the community.",
"homepage": "http://toxsign.genouest.org",
"biotoolsID": "toxsign",
"biotoolsCURIE": "biotools:toxsign",
"tool_type": [
"Web application",
"Database portal"
],
"collection": [],
"scientific_topics": [
"http://edamontology.org/topic_2840"
],
"primary_publication": [],
"operating_system": [
"Linux"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Chalmel Frédéric",
"email": "frederic.chalmel@univ-rennes1.fr",
"url": null,
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"note": null
}
],
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"documentation": null,
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": null,
"citations": null,
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"last_update": "2020-09-28T08:55:30Z",
"teams": [],
"source_repository": null
},
{
"id": 190,
"name": "CRISPRFinder",
"description": "Detects this family of direct repeats found in the DNA of many bacteria and archaea.",
"homepage": "https://crisprcas.i2bc.paris-saclay.fr/CrisprCasFinder/Index",
"biotoolsID": "crisprfinder",
"biotoolsCURIE": "biotools:crisprfinder",
"tool_type": [
"Web application",
"Database portal"
],
"collection": [
"CRISPR"
],
"scientific_topics": [
"http://edamontology.org/topic_0621",
"http://edamontology.org/topic_0749",
"http://edamontology.org/topic_0157",
"http://edamontology.org/topic_2885",
"http://edamontology.org/topic_0203"
],
"primary_publication": [],
"operating_system": [
"Linux",
"Windows",
"Mac"
],
"tool_credit": [
{
"type_role": [
"Primary contact"
],
"name": "Marie Touchon",
"email": "mtouchon@pasteur.fr",
"url": null,
"orcidid": null,
"gridid": null,
"typeEntity": "Person",
"note": null
}
],
"tool_licence": "Unlicense",
"documentation": null,
"maturity": "Mature",
"cost": "Free of charge",
"unique_visits": 480,
"citations": null,
"annual_visits": 2273,
"last_update": "2024-11-24T21:05:00.924973Z",
"teams": [
"EBIO"
],
"source_repository": null
}
]
}