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Apr 10, 2021 - Transposons mobility in M. incognita
Kozlowski, Djampa, 2020, "TE polymorphisms detection and analysis", https://doi.org/10.15454/EWJCT8, Portail Data INRAE, V3, UNF:6:E+xGPf2dIik9HjdvU3Bv3A== [fileUNF]
This dataset contains i) output files from "Kozlowski D. 2020a. Transposable Elements prediction and annotation in the M. incognita genome. Portail Data INRAE [Internet]. Available from: https://doi.org/10.15454/EPTDOS", "Kozlowski D. 2020b. Transposable Elements prediction and a...
Apr 10, 2021 - Transposons mobility in M. incognita
Kozlowski, Djampa, 2020, "Transposable Elements prediction and annotation in the C. elegans genome", https://doi.org/10.15454/LQCIW0, Portail Data INRAE, V2
This datasets contains all the essential files produced during the TE prediction, annotation, and post-processing in the C. elegans genome (e.g. TE consensus library, TE annotations, and associated statistics). Also contains the global workflow (used command lines), the REPET con...
Feb 9, 2021 - Omics Dataverse
Vacher, Corinne, 2021, "Statistical analysis scripts to analyze metabarcoding data of fungal communities associated with two grapevine varieties (Vitis vinifera ‘Regent’ and ‘Cabernet-Sauvignon’)", https://doi.org/10.15454/PL3HWQ, Portail Data INRAE, V1
This archive provides the statistical analysis scripts used to analyze a metabarcoding dataset (available at https://www.ncbi.nlm.nih.gov/bioproject/678415) representing foliar fungal communities associated with two grapevine varieties (Vitis vinifera ‘Regent’ and ‘Cabernet-Sauvi...
Feb 3, 2021
Vacher, Corinne, 2021, "Bioinformatic scripts to analyze metabarcoding data of fungal communities associated with two grapevine varieties (Vitis vinifera ‘Regent’ and ‘Cabernet-Sauvignon’)", https://doi.org/10.15454/KMAU1G, Portail Data INRAE, V1, UNF:6:O96E7S960CaSgbyN7MInuA== [fileUNF]
This archive provides the bioinformatic scripts used to analyze a metabarcoding dataset (available at https://www.ncbi.nlm.nih.gov/bioproject/678415) representing foliar fungal communities associated with two grapevine varieties (Vitis vinifera ‘Regent’ and ‘Cabernet-Sauvignon’)...
Dec 8, 2020 - ThaliaDB maize Dataverse
Nicolas, Stéphane; Madur, Delphine; Charcosset, Alain; Bauland, Cyril; Combes, Valérie; Berard, Aurélie; Arca, Mariangela; Mary-Huard, Tristan; Le Paslier, Marie-Christine; Gouesnard, Brigitte, 2020, "Fluorescence intensity datasets and R scripts to predict allelic frequencies in DNA bulks using maize 50K Illumina array", https://doi.org/10.15454/GANJ7J, Portail Data INRAE, V1, UNF:6:IvZiMGs4Oo8oWZqgBbcDdA== [fileUNF]
R scripts and fluorescence intensity datasets of 24 controlled pools and 327 inbred lines panels extracted from 50K Illumina Infinium HD array (Ganal et al., 2010). These datasets and R scripts can be used to calibrate a model to predict allelic frequencies in new DNA bulks using...
Dec 7, 2020 - Omics Dataverse
Fort, Tania; Pauvert, Charlie; Zanne, Amy; Ovaskainen, Otso; Caignard, Thomas; Barret, Matthieu; Compant, Stéphane; Hampe, Arndt; Delzon, Sylvain; Vacher, Corinne, 2020, "Bioinformatic and statistical scripts for "Fort et al. 2020. Maternal effects shape seed fungal communities in Quercus petraea, New Phytologist"", https://doi.org/10.15454/0CNFWS, Portail Data INRAE, V3, UNF:6:+ROFl+GYxv+1vFHcrzj8MA== [fileUNF]
This dataset contains R-scripts to analyse the diversity and composition of seed fungal communities (Fort et al. 2020. Maternal effects shape seed fungal communities in Quercus petraea. New Phytologist, https://doi.org/10.1111/nph.17153). The bioinformatic script was applied to r...
May 9, 2019 - Omics Dataverse
Pauvert, Charlie; Vallance, Jessica; Delière, Laurent; Buée, Marc; Vacher, Corinne, 2019, "Bioinformatic scripts to assess the effect of the cropping system on both community and network α- and β-properties of fungal microbiota", https://doi.org/10.15454/NSHUAQ, Portail Data INRAE, V1
These bioinformatics scripts were applied to the sequences available at https://doi.org/10.15454/3DPFNJ. They are based on several softwares, including SparCC (Friedman and Alm 2012) and DADA2 (Callahan et al. 2016). The code corresponds to R and R markdown files. These scripts w...
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