Download_Installation.ipynb

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        "title: \"Download & Installation\"\n",
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        "# Download\n",
        "Downloading and using the software is free of charge. \n",
        "\n",
        "Simply download from [here](https://maxquant.org/) and unpack the compressed file //MaxQuant.zip//.\n",
        "\n",
        "# Running \n",
        "Please choose your operating system to view how to run MaxQuant.\n",
        "\n",
        "## MaxQuant on Windows\n",
        "\n",
        "Supported operation system versions (64 bit is required) are Windows Vista, 7, 8, 10,11 or Server 2008, 2012, 2016, 2019\n",
        "\n",
        "  * **Install .NET Framework 4.7.3 or higher**: To find out whether you already have it, follow the instructions on [How to Determine Which .NET Framework Versions Are Installed](http://msdn.microsoft.com/en-us/library/hh925568%28v=vs.110%29.aspx#net_b). If you need to, you can download the software and get installation instructions at the [Microsoft Download Center](http://www.microsoft.com/en-us/download/details.aspx?id=30653).\n",
        "  \n",
        "  We are currently working on making MaxQuant compatible with .Net 6. This will be bring further advantages to speed and stability of the tool. \n",
        "\n",
        "  * **Run MaxQuant GUI**\n",
        "Double click on //MaxQuant.exe// in //MaxQuant// folder and specify your RAW files, experimental design and fasta files.\n",
        "\n",
        "  *  **Start MaxQuant**\n",
        "Click on the //Start// button.\n",
        "\n",
        "## MaxQuant on Linux\n",
        "\n",
        "We are supporting MaxQuant on Ubuntu 16 or higher, but MaxQuant should also work on another distribution of Linux. \n",
        "You may run MaxQuant using Graphical User Interface. In this case, you should install Mono and follow instructions for //MaxQuant on Windows// starting from second point. This tutorial is focused on running MaxQuant using command line.\n",
        "\n",
        "\n",
        "  * **Install .NET Core 3.1** \\\\ \n",
        "To find out whether you already have it, type in the command line\n",
        "\n",
        "\n",
        "```{bash, eval=FALSE}\n",
        "dotnet --version\n",
        "```\n",
        "\n",
        "\n",
        "If you see at least the version //3.1.100//, then everything is ready to start MaxQuant.\n",
        "\n",
        "Otherwise you need to get installation instructions at the [.NET Core SDK 3.1](https://dotnet.microsoft.com/en-us/download/dotnet/3.1) for your operation system.\n",
        "\n",
        "Ubuntu 20.04 (for example)\n",
        "\n",
        "\n",
        "```{bash, eval = FALSE}\n",
        "wget https://packages.microsoft.com/config/ubuntu/20.04/packages-microsoft-prod.deb -O packages-microsoft-prod.deb\n",
        "sudo dpkg -i packages-microsoft-prod.deb\n",
        "sudo apt-get update; \\\n",
        "sudo apt-get install -y apt-transport-https && \\\n",
        "sudo apt-get update && \\\n",
        "sudo apt-get install -y dotnet-sdk-2.1\n",
        "```"
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