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KAT provides a set of tools that, through the handling of k-mer counts, help the buyer address or point out issues such as determining sequencing completeness for assembly, assessing sequencing bias, identifying contaminants, validating genomic assemblies and filtering content. KAT is geared primarily to work with high-coverage genomic reads from Illumina devices, although can work with any fasta or fastq sequence categorize.
Further information can be gleaned to pairwise comparison of spectra, making KAT useful for WGS library comparisons and assembly validation. We selected Jellyfish in the service of this task due to it supports big-hearted K values and is one of the fastest k-mer counting programs currently available. KAT supports Unix, linux or Mac systems. Should you discover any issues with KAT, or wish to request a budding feature please get a ticket here.
Alternatively, contact Daniel Mapleson at: No matter how, please consult the Frequently Asked Questions page first in case your into question is already answered there. Open authority code available on github: This documentation is hosted publicablly on read the docs: We as a result of a big acknowledgment to all TGAC staff that has been bored eternally with k-mers, you have all superseded incredible patient and supportive with us.
Thanks to Dan Sargent for the use of his P.
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