ifb services cloud

Tools deployed by IFB platforms

  • Absynte

    3 Associated keyword(s)
    • Sequence analysis
    • Interfaces, web portals
    • Genome comparison

    web server + web service, http://archaea.u-psud.fr/absynte Gratuit pour u-psud.

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  • Absynte

    3 Associated keyword(s)
    • Sequence analysis
    • Interfaces, web portals
    • Genome comparison

    web server + web service, http://archaea.u-psud.fr/absynte Gratuit pour u-psud.

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  • ACD Tools 2.0

    1 Associated keyword(s)
    • Biostatistics

    Gratuit

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  • ACNUC

    3 Associated keyword(s)
    • Information and communication technology developments
    • Data
    • Databases and information systems

    Freely downloadable software licensed under the GNU General Public License (http://doua.prabi.fr/databases/acnuc) or on-line access through a web interafce (http://doua.prabi.fr/search/query_fam).

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  • ActivCollector

    1 Associated keyword(s)
    • No relevant terms in the list above

    Gratuit

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  • ADE-4

    4 Associated keyword(s)
    • Biostatistics
    • Multivariate analysis
    • Ecology
    • Microbial ecology

    Freely available for download from any CRAN mirror.

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  • AGMIAL

    3 Associated keyword(s)
    • Genomics (DNA-seq)
    • Genome analysis
    • Structural and functional genome annotation

    Le logiciel peut être téléchargé gratuitement sur le site http://genome.jouy.inra.fr/agmial. Il est également possible de demander l’installation d’une instance d’AGMIAL sur les machines de la plate-forme MIGALE.

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  • Ant-Motifs

    2 Associated keyword(s)
    • Sequence analysis
    • Structural bioinformatics
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  • ARNold

    3 Associated keyword(s)
    • Sequence annotation
    • Sequence motif discovery
    • Structure analysis, homologous and structural motifs discovery

    web server

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  • Askomics

    5 Associated keyword(s)
    • NGS data analysis
    • Integration of heterogeneous data
    • Knowledge representation
    • Ontologies
    • Semantic Web

    Free

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  • Aureme

    4 Associated keyword(s)
    • Integration of heterogeneous data
    • System biology
    • Metabolic network modelling
    • Metabolic network analysis

    Free

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  • Autograph

    4 Associated keyword(s)
    • Sequence analysis
    • Homology/Orthology prediction
    • Comparative genomics
    • Genome comparison

    Free access.

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  • BCSearch

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structure analysis, homologous and structural motifs discovery

    Online free access

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  • BioMAJ

    2 Associated keyword(s)
    • Data
    • Data management and transfer

    Téléchargement libre : https://github.com/genouest/biomaj

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  • BioMAJ2Galaxy

    2 Associated keyword(s)
    • Data management and transfer
    • Databases and information systems
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  • BioNJ

    3 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes

    Gratuit via le site web de la plateforme.

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  • BioNJ

    3 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes

    Gratuit via le site web de la plateforme.

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  • BioShaDock

    6 Associated keyword(s)
    • Information and communication technology developments
    • Tools
    • Tool integration
    • Computing environments
    • Cluster
    • Cloud
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  • Cadbiom

    3 Associated keyword(s)
    • System biology
    • Regulatory network modelling
    • System modelling

    Free

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  • Carnac

    1 Associated keyword(s)
    • Sequence analysis

    You can use Carnac via the web interface. It is also possible to download and install it locally (carnac.tar.gz and read_me). You need a C compiler.
    A Windows executable is also available in this zip archive .

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  • Carnac

    1 Associated keyword(s)
    • Sequence analysis

    You can use Carnac via the web interface. It is also possible to download and install it locally (carnac.tar.gz and read_me). You need a C compiler.
    A Windows executable is also available in this zip archive .

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  • Carnac

    1 Associated keyword(s)
    • Sequence analysis

    You can use Carnac via the web interface. It is also possible to download and install it locally (carnac.tar.gz and read_me). You need a C compiler.
    A Windows executable is also available in this zip archive .

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  • Carnac

    1 Associated keyword(s)
    • Sequence analysis

    You can use Carnac via the web interface. It is also possible to download and install it locally (carnac.tar.gz and read_me). You need a C compiler.
    A Windows executable is also available in this zip archive .

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  • Caspo

    3 Associated keyword(s)
    • System biology
    • System modelling
    • Dynamic systems

    Free

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  • CesGO

    6 Associated keyword(s)
    • Information and communication technology developments
    • Tool integration
    • Interfaces, web portals
    • Data integration
    • Data management and transfer
    • Databases and information systems
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  • Clust&See

    3 Associated keyword(s)
    • System biology
    • Complex biological systems functions
    • Multi-layer analysis and modelling

    Libre sur http://tagc.univ-mrs.fr/tagc/index.php/clustnsee et sur l'App store.

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  • Clust&See

    3 Associated keyword(s)
    • System biology
    • Complex biological systems functions
    • Multi-layer analysis and modelling

    Libre sur http://tagc.univ-mrs.fr/tagc/index.php/clustnsee et sur l'App store.

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  • CompPhy

    5 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes
    • Phylogenomics
    • Supertrees et reconciliations

    Gratuit via le site web de la plateforme.

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  • CompPhy

    5 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes
    • Phylogenomics
    • Supertrees et reconciliations

    Gratuit via le site web de la plateforme.

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  • CompPhy

    5 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes
    • Phylogenomics
    • Supertrees et reconciliations

    Gratuit via le site web de la plateforme.

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  • CompPhy

    5 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes
    • Phylogenomics
    • Supertrees et reconciliations

    Gratuit via le site web de la plateforme.

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  • CRAC

    1 Associated keyword(s)
    • NGS data analysis

    CRAC is released under a CECiLL licence (a GPL-compliant licence). You can download it and install it on your server.

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  • CRAC

    1 Associated keyword(s)
    • NGS data analysis

    CRAC is released under a CECiLL licence (a GPL-compliant licence). You can download it and install it on your server.

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  • CRAC

    1 Associated keyword(s)
    • NGS data analysis

    CRAC is released under a CECiLL licence (a GPL-compliant licence). You can download it and install it on your server.

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  • CRAC

    1 Associated keyword(s)
    • NGS data analysis

    CRAC is released under a CECiLL licence (a GPL-compliant licence). You can download it and install it on your server.

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  • CRAC

    4 Associated keyword(s)
    • NGS data analysis
    • Transcriptomics (RNA-seq)
    • Differential gene expression analysis
    • Transcripts and transcript variants analysis

    Gratuit via le site de la plateforme.

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  • CRAC

    4 Associated keyword(s)
    • NGS data analysis
    • Transcriptomics (RNA-seq)
    • Differential gene expression analysis
    • Transcripts and transcript variants analysis

    Gratuit via le site de la plateforme.

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  • CRISPRFinder

    2 Associated keyword(s)
    • Sequence annotation
    • Sequence motif discovery

    web sever

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  • DiNAMO

    1 Associated keyword(s)
    • Sequence analysis

    Aucune

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  • DiNAMO

    1 Associated keyword(s)
    • Sequence analysis

    Aucune

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  • DroPNet

    2 Associated keyword(s)
    • Bioimaging
    • Proteomics
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  • e-BGO

    2 Associated keyword(s)
    • Interfaces, web portals
    • Databases and information systems

    Accès public.

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  • ERPIN

    4 Associated keyword(s)
    • Sequence algorithmics
    • Sequence annotation
    • Sequence motif discovery
    • Structure analysis, homologous and structural motifs discovery
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  • ESPript/ENDscript

    5 Associated keyword(s)
    • Sequence analysis
    • (multiple) Sequence Alignment
    • Sequence motif discovery
    • Structural bioinformatics
    • Structure analysis, homologous and structural motifs discovery

    http://espript.ibcp.fr et http://endscript.ibcp.fr

    Le serveur ESPript/ENDscript est accessible gratuitement, via Internet et sans enregistrement, à la communauté scientifique pour un usage académique.

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  • FastME

    3 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes

    Gratuit via le site web de la plateforme.

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  • FastME

    3 Associated keyword(s)
    • Evolution and phylogeny
    • Molecular evolution
    • Genes and genomes

    Gratuit via le site web de la plateforme.

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  • FITBAR

    3 Associated keyword(s)
    • Sequence analysis
    • Sequence annotation
    • Sequence motif discovery

    Web server

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  • FITBAR

    3 Associated keyword(s)
    • Sequence analysis
    • Sequence annotation
    • Sequence motif discovery

    Web server

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  • fpocket

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structural property prediction

    Online free access.

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  • fpocket

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structural property prediction

    Online free access.

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  • Frog2

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structural property prediction

    Online free access

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  • GalaxEast

    1 Associated keyword(s)
    • NGS data analysis

    Open access for the French academic research community.
    Access facilitated via rapid connexions (eg : Osiris, Renater)

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  • GalaxEast

    1 Associated keyword(s)
    • NGS data analysis

    Open access for the French academic research community.
    Access facilitated via rapid connexions (eg : Osiris, Renater)

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  • Galaxy (piloté par Sigenae)

    5 Associated keyword(s)
    • NGS data analysis
    • Genomics (DNA-seq)
    • Transcriptomics (RNA-seq)
    • Variant calling
    • Metagenomics, metatranscriptomics

    Available on a web site with login and password.

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  • Galaxy-LD

    4 Associated keyword(s)
    • Machine learning
    • Knowledge extraction
    • Integration of heterogeneous data
    • Semantic Web
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  • Galaxy-LD

    4 Associated keyword(s)
    • Machine learning
    • Knowledge extraction
    • Integration of heterogeneous data
    • Semantic Web
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  • Galaxy@BiRD

    13 Associated keyword(s)
    • NGS data analysis
    • Transcriptomics (RNA-seq)
    • Differential gene expression analysis
    • Variant calling
    • Panels (amplicons, captures)
    • Exomes
    • Whole genomes
    • Genomics: Chips
    • RNA chips
    • Expression
    • Proteomics
    • Quantitative proteomics
    • Statistical Differential Analysis

    L'accès à Galaxy nécessite la création d'un compte sur le cluster : http://www.pf-bird.univ-nantes.fr/07074276/0/fiche___pagelibre/&RH=14425...

     

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  • Galaxy@BiRD

    13 Associated keyword(s)
    • NGS data analysis
    • Transcriptomics (RNA-seq)
    • Differential gene expression analysis
    • Variant calling
    • Panels (amplicons, captures)
    • Exomes
    • Whole genomes
    • Genomics: Chips
    • RNA chips
    • Expression
    • Proteomics
    • Quantitative proteomics
    • Statistical Differential Analysis

    L'accès à Galaxy nécessite la création d'un compte sur le cluster : http://www.pf-bird.univ-nantes.fr/07074276/0/fiche___pagelibre/&RH=14425...

     

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  • Galaxy@CBiB

    2 Associated keyword(s)
    • NGS data analysis
    • Sequence analysis

    Free web access, possibility of access to supplementary storage

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  • Galaxy@CBiB

    2 Associated keyword(s)
    • NGS data analysis
    • Sequence analysis

    Free web access, possibility of access to supplementary storage

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  • GATB

    10 Associated keyword(s)
    • NGS data analysis
    • Methodology
    • Genome and transcriptome assembly
    • Read mapping
    • Variant calling
    • Exomes
    • Whole genomes
    • Metagenomics, metatranscriptomics
    • Sequence analysis
    • Sequence algorithmics

    Freely available.

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  • Geno3D@

    4 Associated keyword(s)
    • Structural bioinformatics
    • Structure analysis, homologous and structural motifs discovery
    • Structural property prediction
    • Structure comparative and de novo modelling

    https://geno3d-prabi.ibcp.fr (depuis février 2001).

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  • GenRGenS

    3 Associated keyword(s)
    • Sequence algorithmics
    • Sequence motif discovery
    • Structure analysis, homologous and structural motifs discovery

    Jar + tar.gz download

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  • GenRGenS

    3 Associated keyword(s)
    • Sequence algorithmics
    • Sequence motif discovery
    • Structure analysis, homologous and structural motifs discovery

    Jar + tar.gz download

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  • GO-Docker

    4 Associated keyword(s)
    • Information and communication technology developments
    • Computing environments
    • Cluster
    • Cloud
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  • GO2Pub

    6 Associated keyword(s)
    • Integration of heterogeneous data
    • Ontologies
    • Information and communication technology developments
    • Data
    • Data integration
    • Databases and information systems

    Accès libre

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  • GoArrays

    1 Associated keyword(s)
    • NGS data analysis
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  • Hex

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structural property prediction

    Free licence for academic use

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  • HexServer

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structural property prediction

    Free service: no login or registration required

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  • HHalign-Kbest

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structure comparative and de novo modelling

    Online free access

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  • HiSpOD

    2 Associated keyword(s)
    • Sequence analysis
    • Genomics: Chips
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  • IntegronFinder

    2 Associated keyword(s)
    • Sequence annotation
    • Sequence motif discovery

    Integron_Finder is released under the GPLv3 license  and is available here: https://github.com/gem-pasteur/Integron_Finder

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  • InterEvDock2

    2 Associated keyword(s)
    • Structural bioinformatics
    • Structure comparative and de novo modelling

    Online free access

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  • Interface web blast

    1 Associated keyword(s)
    • Sequence analysis

    Available on the web site.

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  • Interface web Emboss

    1 Associated keyword(s)
    • Sequence analysis

    Site web

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  • ISsaga

    7 Associated keyword(s)
    • Sequence analysis
    • (multiple) Sequence Alignment
    • Sequence annotation
    • Sequence motif discovery
    • Homology/Orthology prediction
    • Data curation
    • Genome comparison

    Les utilisateurs demandent un compte puis peuvent charger de façon illimitée, des projets d’annotation de génomes.

    Gratuit.

    NB : Le nombre de nouveaux comptes ouverts par an est comptabilisé dans "visites uniques" mais chaque utilisateur a un accès illimité à son compte et à ses génomes chargés.

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  • JFlow

    2 Associated keyword(s)
    • Workflows developments
    • Cluster

    The software package is available under the GNU General Public License (GPL) and can be downloaded from the mulcyber forge.

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  • JFlow

    2 Associated keyword(s)
    • Workflows developments
    • Cluster

    The software package is available under the GNU General Public License (GPL) and can be downloaded from the mulcyber forge.

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  • Jvenn

    1 Associated keyword(s)
    • Interfaces, web portals

    The software package is available under the GNU General Public License (GPL) and can be downloaded from the mulcyber forge.

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  • KASpOD

    2 Associated keyword(s)
    • Sequence analysis
    • Genomics: Chips
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  • Kpax

    2 Associated keyword(s)
    • Structure analysis, homologous and structural motifs discovery
    • Structure comparative and de novo modelling

    No-cost licence for academic use.

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  • leBiBI

    2 Associated keyword(s)
    • NGS data analysis
    • Metagenomics, metatranscriptomics

    Free online access.

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  • Logol

    2 Associated keyword(s)
    • Sequence analysis
    • Sequence motif discovery

    Utilisation interne.

    Accès libre.

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  • LoRDEC

    5 Associated keyword(s)
    • NGS data analysis
    • Methodology
    • Read mapping
    • Genomics (DNA-seq)
    • Transcriptomics (RNA-seq)

    Gratuit depuis le site web de la plateforme.

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  • LoRDEC

    5 Associated keyword(s)
    • NGS data analysis
    • Methodology
    • Read mapping
    • Genomics (DNA-seq)
    • Transcriptomics (RNA-seq)

    Gratuit depuis le site web de la plateforme.

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  • LoRDEC

    5 Associated keyword(s)
    • NGS data analysis
    • Methodology
    • Read mapping