1 to 10 of 57 Results
Jul 9, 2026 - DYNADIV Team
Davy, Martin; Barnaud, Adeline; Berthouly-Salazar, Cecile; Renard Delphine; Thuillet, Anne-Celine, 2026, "SAGHAS - Sowing AGrobiodiversity to HArvest Sustainability: a multi-source database of crop species cultivated for human food", https://doi.org/10.23708/LK5VUI, DataSuds, V1, UNF:6:mNCUB06Fnpj7NbK+SblAGA== [fileUNF]
Across the vast diversity of vascular plants on Earth, around 6,000 species have been used as food sources for humans. Yet, only nine crops provide more than 60% of the calories consumed worldwide. In the face of accelerating climate change, biodiversity loss, and malnutrition, t... |
Ravel, Sebastien; Marthe, Nina; Carrette, Camille; Mohamed, Mourdas; Sabot, Francois; Christine, Tranchant-Dubreuil, 2026, "Supporting data and scripts produced by the GraTools software", https://doi.org/10.23708/M24LJG, DataSuds, V1
Here, we introduce GraTools (https://forge.ird.fr/diade/gratools), a fast and user-friendly command-line tool for manipulating PVGs using the original GFA file. After a one-time graph import, GraTools enables rapid subgraph extraction, fasta sequence retrieval, and comprehensive... |
Mar 6, 2026 - gratools
Sabot, Francois, 2026, "Data used in the gratools paper", https://doi.org/10.23708/SOTLQU, DataSuds, V1
These are the data (mostly Pangenome variation graphs) that were used in the gratools paper only. The file is the Zenodo DOI link for the thre graphs. |
Ravel, Sebastien; Marthe, Nina; Carrette, Camille; Mohamed, Mourdas; Sabot, Francois; Christine, Tranchant-Dubreuil, 2026, "Code source for GraTools v1.1.0", https://doi.org/10.23708/DXOP8N, DataSuds, V1
This code is the original source code submitted for GraTools in March 2026. This is a dump of the IRD Forge git, master branch |
Oct 29, 2025 - GrAnnoT data and output
Marthe, Nina; Sabot, Francois, 2025, "Data used for the analysis described in GrAnnoT paper", https://doi.org/10.23708/DO1RTF, DataSuds, V6
GrAnnoT is an annotation transfer tool for pangenome graph. It was tested and compared to other approaches, and the data necessary for these tests is available in this dataset. It includes mainly pangenome graphs, genomes, and annotations. |
Oct 29, 2025 - GrAnnoT data and output
Marthe, Nina; Sabot, Francois, 2025, "Output from the analysis described in GrAnnoT paper", https://doi.org/10.23708/RRSKRA, DataSuds, V6
GrAnnoT is an annotation transfer tool for pangenome graph. It was tested and compared to other approaches, and the outputs from these tests are available in this dataset. It includes mainly transferred annotations. |
Kaczmarek, Thomas; Faye, Adama; Ilmi Ahmed, Aicha; Veltman, Margaretha; Thuillet, Anne-Celine; Scarcelli, Nora; Sultan, Benjamin; Vigouroux, Yves; Cubry, Philippe, 2025, "Testing the impact of environmental variables on the predictive performance of genomic offset statistics: crop-specific metrics computed from the EWEMBI v.1 climate dataset.", https://doi.org/10.23708/M9YGDC, DataSuds, V1, UNF:6:EdX+/x3auhCXDY0Q7OgZ4g== [fileUNF]
The ability of species and populations to adapt to their environment faces increasing challenges as climate change accelerates. Recent methods based on genomic offset (GO) statistics aim to quantify the risk of non-adaptation of populations to future climates. While several studi... |
Duminil, Jerome; Dupiol, Pablo; Chakocha Ngandjui, Armel Franklin; Tientcheu, Avana Marie Louise; Mariac, Cedric; Charahabil, Mohamed Mahamoud; Barnaud, Adeline, 2025, "Development of new microsatellites markers for Cola acuminata (Malvaceae), a socio-economically important fruit tree species in Central Africa", https://doi.org/10.23708/6FCSLF, DataSuds, V1, UNF:6:JjyY2CKXXeBPZvLKRN5hnA== [fileUNF]
Data from the publication "Development of new microsatellites markers for Cola acuminata (Malvaceae), a socio-economically important fruit tree species in Central Africa". Manuscript PJS_2_147801 Plant Ecology and Evolution. We developed a new set of nuclear microsatellite marker... |
Salson, Marine; Duranton, Maud; Huynh, Stella; Mariac, Cédric; Tranchant-Dubreuil, Christine; Orjuela, Julie; Cubry,Philippe; Thuillet, Anne-Celine; Burgarella, Concetta; De Navascués, Miguel; Zekraouï, Leïla; Couderc, Marie; Arribat, Sandrine; Rodde, Nathalie; Barnaud, Adeline; Adama Faye; Kane, Ndjido; Vigouroux, Yves; Berthouly-Salazar, Cécile, 2025, "VCF files from the study of low recombining genomic regions in pearl millet", https://doi.org/10.23708/SN2T4A, DataSuds, V1
We conducted a comprehensive investigation of large low-recombining regions in cultivated populations of pearl millet, an outcrossing diploid African cereal. We adopted a population genomic approach based on the analysis of single nucleotide polymorphisms. The repository contains... |
