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1 to 10 of 33 Results
Dec 1, 2020 - Select SNP for Imputation
Herault, Frederic, 2020, "Select SNP for Imputation software",, 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...
Nov 27, 2020
Andrey, Philippe; Arpòn, Javier, 2020, "Spatial modeling of biological patterns shows multiscale organization of Arabidopsis thaliana heterochromatin: main source code.",, 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...
Nov 2, 2020
Allart, Roland; Ricci, Benoît; Poggi, Sylvain, 2020, "R package alm : Automated Landscape Mapping",, Portail Data INRAE, V1
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.
Oct 12, 2020
Barroso Bergada, Didac, 2020, "Microbial networks inferred from environmental DNA data for biomonitoring ecosystem change: strengths and pitfalls -- R code",, Portail Data INRAE, V2, UNF:6:orRB87170pdVwzurwPbM3A== [fileUNF]
R code used to perform the network inference and analysis of "Microbial networks inferred from environmental DNA data for biomonitoring ecosystem change: strengths and pitfalls"
Sep 28, 2020
Leforestier, Rodolphe, 2020, "Numerical simulation program based on Carver-Richards equations for the calculation of the transverse relaxation rate of simple sugars solutions",, Portail Data INRAE, V1
This Scilab program calculates the transverse relaxation rate of sugar solutions modeling the fruit vacuolar content by taking into account various parameters such as the intensity of the magnetic field, the echo time, the temperature and the pH of the sample, the concentration (...
Aug 5, 2020
Ehrenmann, Francois; Plomion, Christophe, 2020, "Oak Genome Sequencing Website",, Portail Data INRAE, V2
The oak genome sequencing website, concerning the sequencing of the oak genome and identification of genes important for the adaptation of forest trees, is a permanent resource by INRAE, available at It provides access to various resources : oak genome b...
Jul 23, 2020 - UEFP Dataverse
Denou, Jean-Luc, 2020, "GéoDispo, un nouvel outil pour géoréférencer facilement les objets d'étude (plantes ligneuses par exemple) dans les dispositifs expérimentaux de terrain",, Portail Data INRAE, V2
Dans la plupart des dispositifs expérimentaux (sylviculture, viticulture, arboriculture), les objets d'étude (dans ces cas des plantes ligneuses) sont identifiés dans un repère orthogonal spécifique au dispositif, avec des coordonnées de type XY qui ne permettent pas directement...
Jul 16, 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 to analyze metabarcoding data of fungal communities",, Portail Data INRAE, V1, UNF:6:AbAHJCHSVEP+kwY2z9TN7A== [fileUNF]
This dataset contains R-scripts to analyse the diversity and composition of seed fungal communities (Fort et al., Maternal effects shape seed fungal communities in Quercus petraea. Submitted). The bioinformatic script was applied to raw sequences after paired-end sequences were j...
Jul 3, 2020 - Transposons mobility in M. incognita
Kozlowski, Djampa, 2020, "TE polymorphisms detection and analysis with PopoolationTE2",, 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.
Jul 3, 2020 - Transposons mobility in M. incognita
Kozlowski, Djampa, 2020, "Transposable Elements prediction and annotation in the C. elegans genome",, 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...
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