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A, still very experimental, R package that acts as a storage location for functions and interfaces in connection with genomics (genomes, transcriptomes, annotation, phylogenomics, ...)
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AMAP / AMAPVox / AMAPVox
CeCILL Free Software License Agreement v2.0LiDAR data voxelisation package
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PHIM / dereeper / SampleTracker
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PHIM / sravel / PodiumASM
MIT LicenseLong-read sequencing is a highly accurate approach that can be used to challenging genomes, such as those containing stretches of highly repetitive elements and lot of structural variant. Long read sequencing can also be used to generate de novo assembly and genome finishing applications Lot of tools are used to make genome assembly with long reads every day and sometimes you don't know wich Assembler tool is the best for your organism. PodiumASM is here for you ! PodiumASM is is an open-source, scalable, modulable and traceable snakemake pipeline, able to compare multiple long read assemblies obtained from multiple assemblers tools. The workflow PodiumASM can help you to choose the best assemblies among all possibilities.
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MIVEGEC / dainat / MaLBEC - Unix basics
Creative Commons Attribution 4.0 InternationalMaterials for Learning Bioinformatics and Enhancing Competencies - Unix basics
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DIADE / Recombination_landscape / Biparental LC-NGS Snakemake
GNU Affero General Public License v3.0Updated -
TRANSVIHMI / nfernandez / Reads_Quality_Control
GNU Affero General Public License v3.0Reads Quality Control (RQC) allow raw NGS reads quality control, before continue with more downstream analysis.
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AMAPVox, LiDAR data voxelisation software
Copyright (c) https://www.ird.fr (Institut de Recherche pour le Développement) 2016-2022
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MARBEC / ob7 / Quarto Ob7 Letter Extension
GNU General Public License v3.0 or laterQuarto letter extension for Ob7
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Materials for Learning Bioinformatics and Enhancing Competencies - Containers
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Materials for Learning Bioinformatics and Enhancing Competencies - nf-core
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DIADE / Recombination_landscape / PopSimul
GNU Affero General Public License v3.0Updated