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1 to 10 of 27 Results
Jul 3, 2020 - Transposons mobility in M. incognita
Kozlowski, Djampa, 2020, "Transposable Elements prediction and annotation in the M. incognita genome", https://doi.org/10.15454/EPTDOS, Portail Data INRAE, V2
Summary: contains all the essential files produced during the TE prediction, annotation, and post-processing in the M. incognita genome (e.g. TE consensus library, TE annotations, and associated statistics). Also contains the global workflow (used command lines), the REPET config...
Jul 3, 2020 - 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, V1
Summary: 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 configur...
Jun 11, 2020 - Transposons mobility in M. incognita
Kozlowski, Djampa; Da Rocha, Martine; Danchin, Eienne, 2020, "TE-related genes: annotation, characterisation, and expression.", https://doi.org/10.15454/DLDJVF, Portail Data INRAE, V1, UNF:6:0p5duAh0cUT41dCDh04q9g== [fileUNF]
Summary: contains the gene analysis workflow used to evaluate the genes expression and to find the genes potentially involved in the TEs transposition machinery. Also, it contains the gene annotation file (bed format), the proteome stem from (https://doi.org/10.1371/journal.pgen....
Jul 3, 2020 - Transposons mobility in M. incognita
Kozlowski, Djampa, 2020, "TE polymorphisms detection and analysis with PopoolationTE2", https://doi.org/10.15454/EWJCT8, Portail Data INRAE, V2
Summary: contains the i) popoolationTE2 workflow used to detect polymorphism across M. incognita's isolates and evaluate the tool error rate, ii) the popoolationTE2 output file containing all the potential TE polymorphisms, iii) the global analysis workflow.
Nov 27, 2020
Andrey, Philippe; Arpòn, Javier, 2020, "Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin: main source code.", https://doi.org/10.15454/UCRGED, Portail Data INRAE, V2
This dataset contains the source code of a program for the statistical spatial analysis of objects patterns from 3D images. An executable version of the program, compiled for Ubuntu 18.04, is also included. The program has been applied to analyze the 3D spatial arrangement of chr...
Dec 10, 2020 - Experimental - Observation - Simulation Dataverse
Haug, Benedikt, 2020, "Simulation Code for comparison of uni- and bivariate analysis in mixed cropping experiments", https://doi.org/10.15454/33S25W, Portail Data INRAE, V1, UNF:6:hFfv2zYHlDnBa/66IZEF+A== [fileUNF]
Simulation code for Haug, Benedikt, Monika M. Messmer, Jérôme Enjalbert, Isabelle Goldringer, Emma Forst, Timothée Flutre, Tristan Mary-Huard, and Pierre Hohmann. “Advances in Breeding for Mixed Cropping – Incomplete Factorials and the Producer/Associate Concept”, Manuscript subm...
Dec 10, 2020 - Experimental - Observation - Simulation Dataverse
Haug, Benedikt, 2020, "Simulation Code for comparison of four different experimental designs in mixed cropping experiments", https://doi.org/10.15454/VKKIBU, Portail Data INRAE, V1, UNF:6:hFfv2zYHlDnBa/66IZEF+A== [fileUNF]
Simulation code for Haug, Benedikt, Monika M. Messmer, Jérôme Enjalbert, Isabelle Goldringer, Emma Forst, Timothée Flutre, Tristan Mary-Huard, and Pierre Hohmann. “Advances in Breeding for Mixed Cropping – Incomplete Factorials and the Producer/Associate Concept”, Manuscript subm...
Dec 1, 2020 - Select SNP for Imputation
Herault, Frederic, 2020, "Select SNP for Imputation software", https://doi.org/10.15454/4KVRWY, Portail Data INRAE, V1
Select SNP subset for Imputation (SS4I) is a tool dedicated to the selection of a sub-panel of SNP for the design of a low density genotyping chip. This program, written in Python, allow the selection of SNP subset according to a chosen linkage disequilibrium (r2) threshold on a...
Feb 18, 2020 - Omics Dataverse
Vacher, Corinne, 2020, "R scripts used to infer microbial networks from metabarcoding data and validate them using text-mining", https://doi.org/10.15454/5WD6P6, Portail Data INRAE, V1, UNF:6:LNjhKptvEnA9T2eqRWfBNQ== [fileUNF]
R scripts and datafiles used to infer microbial association networks from metabarcoding data of grapevine foliar samples infected or not by powdery mildew (Erysiphe necator). R script used to search for microbial associations in the Scopus database.
Jan 12, 2021
Allart, Roland; Ricci, Benoît; Poggi, Sylvain, 2020, "R package alm : Automated Landscape Mapping", https://doi.org/10.15454/AKQW7Y, Portail Data INRAE, V2
R package 'alm' : R code and associated shiny application dedicated to the automated mapping of landscapes. The package 'alm' allows users to select and combine layers of geographical information (shapefiles) to map the land covers of a specified buffer or set of buffers.
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