What you need to create a bootable installerĪ USB flash drive or other secondary volume with at least 14 GB of available storage, formatted as Mac OS Extended You don’t need a bootable installer to upgrade macOS or reinstall macOS, but it can be useful if you want to install macOS on multiple computers without downloading the installer each time, or you’re unable to install a compatible macOS from the Finder or macOS Recovery. Informed and Automated k-Mer Size Selection for Genome Assembly, HiTSeq 2013.These advanced steps are primarily for system administrators and other experienced users who are familiar with entering commands in Terminal. To contact the authors directly: rayan.chikhi at ArticleĬhikhi R., Medvedev P. 1.5260 (5/26/13): Improved model R code (thanks to Anton Korobeynikov).1.5378 (6/25/13): Suitable histogram resolution (-e parameter) is automatically detected, useful for small (bacterial) genomes.1.5621 (8/02/13): HTML report for easier results examination (inspired by FastQC).1.6213 (1/30/14): Advanced Help section in the HTML report, to guide interpretation of results.1.7016 (3/21/16): Improved robustness of diploid model.1.7023 (12/24/16): Improved speed of histogram estimation method (using ntCard).See a sample report generated by KmerGenie from a dataset of bacterial reads.ĭownload KmerGenie sources here: SPAdes, IDBA) generally perform better with default parameters (using multiple k values), rather than the single best k predicted by KmerGenie. KmerGenie predictions can be applied to single-k genome assemblers (e.g. Experiments show that KmerGenie's choices lead to assemblies that are close to the best possible over all k-mer lengths. Then, for each value of k, it predicts the number of distinct genomic k-mers in the dataset, and returns the k-mer length which maximizes this number. Given a set of reads, KmerGenie first computes the k-mer abundance histogram for many values of k. KmerGenie estimates the best k-mer length for genome de novo assembly.
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