PeptideShaker has a strong connection to the SearchGUI project. Quay.io/biocontainers/peptide-shaker:X.Y.Z-1 PeptideShaker is available as a Miniconda package in the bioconda channel here.ĭocker run -v /home/my_user/resources:/myresources PeptideShaker can also be used via the command line, and be incorporated in different analysis pipelines.įor details about the command line see: PeptideShakerCLI. A graphical user interface is the best choice for smaller projects. The main purpose of PeptideShaker is to make it simpler to process and display the results of multiple search engines. The minimum screen resolution for PeptideShaker is 1280 x 800, but it is highly recommended to use at least 1680 x 1050. Note that in order to use more than 1500 MB of memory you need to install the 64 bit version of Java. If parsing big datasets even more memory is required: the bigger the dataset the more memory you need. However to get the best out of PeptideShaker a newer machine with at least 4 GB of memory is recommended. We recommend always using the latest version of Java. It should be possible to run PeptideShaker on almost any computer where Java 1.8 or newer is installed. To start using PeptideShaker, unzip the downloaded file, and double-click the PeptideShaker-X.Y.Z.jar file. For specific bug reports or issues please use the issues tracker. If you have any questions, suggestions or remarks, feel free to contact us via the
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