Metagenomics
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Metagenomics
Wiki
Tools
16S tools
Assembly
BLAST
Bowtie2
Genome
Pathogen screening
Phylogenetic tree
SAMtools
Sequence data
Short read samples
Ubuntu/Linux server
Tools
>
BLAST
>
Generate_database
>
Public sequences
Public available nucleotide and amino acid sequences
→ NCBI
Genome sequences
RefSeq
- manually selected reference genomes (see
FAQ
and
ftp-download
)
GenBank - complete set of available reference genomes
Protein sequences
→ Uniprot
Protein sequences
and functional information
Swiss-Prot
- manually reviewed
TrEMBL - unreviewed
→ Antibiotic Resistance Database
(CARD)
→ Multilocus sequence typing (MLST)