forgemia.inra.fr
inter_cati_omics/hackathon_inter_cati_decembre_2022/atelier_4_si_brapi/hackathon-brapi
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umrf/exploremetabar-docker
Docker recipe for exploremetabar Shiny App.
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metexplore/cbm/samba-project/sambaflux
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get-nextflow-ngl-bi/wf-illumina-nf
Pipeline Nextflow
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urep/dev_utils/gitlab-ci-templates
Some templates useful for Gitlab CI Yaml scripts.
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inter_cati_omics/hackathon_octobre2021/shinyDataScience
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sk8/sk8-apps/get-trix/matrixapp
Link to running app: https://matrixapp.sk8.inrae.fr MATRiX is a shiny application dedicated to Mining and Analysis of Transcriptomics data using common biostatistic result files (statistical test result table, normalised data table and samples-groups information). This application helps biologists to perform data exploration with PCA, Venn diagrams, StripCharts, volcanoplots, and Heatmap clustering of genes lists (selecting statistical thresholds) and functional enrichment analyses using a connection to enrichr. https://matrixapp.sk8.inrae.fr
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gt-maiia/mifobio_stardist
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urep/soere-pp/ec-data-processing
Scripts for data manipulation and post-processing of Eddy covariance data
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in-wop/vgest
VGEST is software developped in Pascal which serve to calculate water volume limits to be respected in reservoirs set up in parallel on a hydrographic network, to allow the best future satisfaction of a common downstream management objective.
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lisc/gender-diff-model
https://lisc.pages.mia.inra.fr/gender-diff-model/ Web application for playing with the gender differenciation model published by S. Huet, F. Garguilo and F. Pratto in 2020.
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dynamo/introduction-to-modelling-in-epidemiology
Introduction à la Modélisation en Épidémiologie Animale
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urep/dev_utils/fortran_utils/netcdf
Library to manage in Fortran machine-independent data formats that support the creation, access, and sharing of array-oriented scientific data.
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dipso/eosc-pillar/dataverse-d4science-connector
Connecteur permettant les échanges de données entre dataverse et D4Science (https://www.d4science.org/)
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elisemaigne/slides/presentation_sk8_miat
https://elisemaigne.pages.mia.inra.fr/slides/presentation_sk8_miat/
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umr-ispa/formation-linux-et-dev
Support de présentation pour les sessions de formation bases de Linux et bonnes pratiques de développement informatique
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inter_cati_omics/hackathon_inter_cati_omics_roscoff_2023/atelier_inference_reseaux
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dynafor/webapps/eagle-hedges
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tropo-group/tropolink-usecases
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metabohub/web-components/mth-grid
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ecoelec/communication/ecoelec
https://ecoelec.pages.mia.inra.fr/communication/ecoelec
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umr-gdec/agr-ancestral-genome-reconstruction
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urep/dev_utils/gitlab-project-templates/r-package-project-template
A Gitlab project template for an R package. Use it as a base for a new R package project. See README for details.
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asm4pg/GenomAsm4pg
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formationcalcul2022/formation-linux
Initiation à linux
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mathscell/vkvh
kvh viewer
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singularity-mesolr/acta-cfd-1.0.0
Container pour l'équipe ACTA composé de incompact3d, PALM, WRF et OpenFoam en Ubuntu 18.04. Johan Carlier, Laurence Wallian
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geapsi/pipeline/specifics_ortho_kb
Nextflow pipeline creating a Neo4j Ortho_KB database.
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migale/metabarfood
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gdtpyr/notice_mesolr
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biocom/soil-fungal-bacterial-ratio-across-france
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chemhouse/r/rchemo
R package for regression and discrimination, with special focus on chemometrics and high-dimensional data
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inter_cati_omics/hackathon_inter_cati_decembre_2022/Atelier_1_Snakemake_Singularity_Pangenome/containers/vg_1.39
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singularity/prebuilt/miniconda3-py37
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mesuredeau/height-calculator
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scanner3d/analysemorphologique
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biocom/mfd-targets-pipeline
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umr-astre/sit-methods
https://umr-astre.pages.mia.inra.fr/sit-methods/
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abisoft-gqe/biomercator
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anaee-dev/docker_registry
Projet pour déposer les images docker générées dans les autres projets anaee-dev
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biosp/juliette-legrand
https://biosp.pages.mia.inra.fr/juliette-legrand
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sk8/sk8-apps/gqe/shinyteach/gqe-chi2
https://gqe-chi2.sk8.inrae.fr
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umr-astre/presentations/reproducible-research-in-r
Slides for the session on Reproducible Research in R at MOOD's summer school 2022. https://umr-astre.pages.mia.inra.fr/presentations/reproducible-research-in-r Recording: https://av.tib.eu/media/13751
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record-open-archives/ascrom
pubilc repository for the ASCROM crop model developped during the ATCHA project model documentation: https://record-open-archives.pages.mia.inra.fr/ascrom/
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cropmetapop/cmpanalyzer
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metexplore/metexplore-api/metexplore3-nodejs-api
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metagenopolis/eskrim
ESKRIM: EStimate with K-mers the RIchness in a Microbiome
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singularity/bioinfo/bwa_v0.7.17
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singularity/bioinfo/fastqc_v0.11.8
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asterics/user_documentation
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dipso/onyxia-helm-charts-interactive-services
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geekus-biologicae/gitrstudio
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singularity/prebuilt/miniconda3-py39
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singularity/bioinfo/bcftools_v1.15
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umr-astre/sit-sudan
https://umr-astre.pages.mia.inra.fr/sit-sudan
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formationcalcul2023/formation-linux
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migale/wf_caviar
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umr-astre/confint_ratio
Confidence intervals for a ratio of variables. https://umr-astre.pages.mia.inra.fr/confint_ratio/
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umr-astre/difuse
Projet Difuse Activite 1: Caractérisation de la diversité des pratiques et des points de vue des acteurs manifestant leur volonté de s’engager dans le changement face aux urgences socio-écologiques au sein la Recherche Pour le Développement.
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metexplore/cbm/pva
pathway variability analysis using the miom library
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prose/deepomics-submission
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umr-astre/force_of_infection_lidiski
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geapsi/ecp-paper/ortholegkb_data
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csopra/csoprat_packages_test
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umr-astre/nimbletempdev
R package for modelling arthropod development rates (mean and variance) as a function of temperature in nimble. Adapted from the PhD work of Soledad Castano (http://www.theses.fr/223623849).
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ml_apt/g2f_challenge
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umr-astre/training/crashbayes
Crash Course On Bayesian Regression Modelling. https://umr-astre.pages.mia.inra.fr/training/crashbayes/
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metexplore/cbm/samba-project/sambar-shiny
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pole-migrateurs/renosaum/bretagne/abundance
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sk8/sk8-apps/tbi/graphstatsr
GraphstatsR est une application permettant le l'analyses de données de quantification métabolomiques prétraitées (MS, RMN). Elle permet la génération d'analyse descriptive (ACP), de représentations graphiques type boxplot avec tests statistiques associées, cela avec une interactivité permettant à l'utilisateur d'ajuster au mieux les analyses. Cette application peut traiter des données issues d'autres méthodes à condition de fournir des fichiers d'entrée au bon format. https://graphstatsr.sk8.inrae.fr
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workshop-metabolism-modelling/2024-edition
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genotoul-biostat/website
Dépôt du site internet de la plateforme Genotoul-biostat
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work4graph/bootcamp-neo4j-2022
Organisation d'un bootcamp autour de l'intégration et la visualisation de données avec Neo4J, adossé en amont d'une formation Neo4J en ligne. Site web : https://work4graph.pages.mia.inra.fr/bootcamp-neo4j-2022/
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metexplore/tools/degradation-products-search
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gafl/pipelines_snakemake/check_sequencing
Check fastq files for md5 and number of lines between fastq1 and fastq2
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dipso/eosc-pillar/dataverse-vitam-archiving
Archiving packages generation and export from Dataverse to Vitam platform.
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pole-migrateurs/modeles/quarto-extension
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inter_cati_omics/web/wiki
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beyond/beyond-es-indexation
Beyond project
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pole-migrateurs/bibliometrics4hal
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sk8/sk8-apps/ijpb/rflomics
L'application rflomics est un package R couplé à une interface shiny permettant la gestion, l'analyse et l'intégration statistique de plusieurs jeux et types de données -omics: RNAseq, proteomics et metabolomics (pour le moment). Lien vers l'application : https://rflomics.sk8.inrae.fr
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sk8/sk8-apps/agroecosystem/absys/agroforestreeadvice
AgroforesTreeAdvice est un comparateur d’avis sur les essences d’arbres à planter en agroforesterie: il regroupe, sous une interface unique et multilingue, plusieurs outils de sélection d'arbres (espèces, variétés, porte-greffes) développés dans plusieurs pays. https://agroforestreeadvice.sk8.inrae.fr
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genotoul-bioinfo/metagwgs-test-datasets
Repository containing input and output datasets to perform tests on metaGWGS
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umr-astre/sit-reunion
Population suppression using boosted-SIT technique in La Réunion. https://umr-astre.pages.mia.inra.fr/sit-reunion/
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sk8/sk8-apps/gqe/shinyteach/gqe-recomblines
https://gqe-recomblines.sk8.inrae.fr
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sk8/sk8-apps/gqe/shinyteach/gqe-echantillon-quanti
https://gqe-echantillon-quanti.sk8.inrae.fr
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inca-hsmm/hsmmpp
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biosp/static/test
http://biosp.pages.mia.inra.fr/static/test/
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emfeed1/vasa/vasa-aleph-zero
Le projet IlluminaMetabarcodingPipeline a pour but de traiter des séquences issues de séquençage à très haut débit Illumina MySeq et d'en découvrir des modèles
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record-open-archives/mf1_2
pubilc repository for the MF1_2 farm model developped during the ATCHA project model documentation: https://record-open-archives.pages.mia.inra.fr/mf1_2/
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singularity/bioinfo/bamUtil
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dipso/eosc-pillar/dataverse-renku-connector
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jt/presentation-vue
https://j-touchais-pages.pages.mia.inra.fr/presentation-vue
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inter_cati_omics/hackathon_octobre2021/atelier_repro
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migale/dubii_magali_monnoye
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formationcalcul2023/formation-slurm
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miat-com/miat_website
[Site web de MIAT](https://miat.inrae.fr), avec wowchemy (hugo). Pour voir vos modifications après un commit, la preview du site web est là : https://miat-com.pages.mia.inra.fr/miat_website Assignez vos merges requests pour qu'elles soient passés sur le "vrai" site web, à votre correspondant d'équipe : @benjamin.linard, @gauthier.quesnel, @philippe.bordron ou @rtrepos
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