How To Install R_mds?
R_mds
genomic sequence element (kmer) enrichment analysis
Install R_mds
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Debian
apt-get install seerClick to copy -
Ubuntu
apt-get install seerClick to copy -
Kali Linux
apt-get install seerClick to copy -
Raspbian
apt-get install seerClick to copy
seer
genomic sequence element (kmer) enrichment analysisBacterial genomes vary extensively in terms of both gene content and gene sequence - this plasticity hampers the use of traditional SNP-based methods for identifying all genetic associations with phenotypic variation. SEER provides a computationally scalable and widely applicable statistical method for the identification of sequence elements that are significantly enriched in a phenotype of interest. SEER is applicable to even tens of thousands of genomes by counting variable- length k-mers using a distributed string-mining algorithm. Robust options are provided for association analysis that also correct for the clonal population structure of bacteria. Using large collections of genomes of the major human pathogen Streptococcus pneumoniae, SEER identifies relevant previously characterised resistance determinants for several antibiotics.