dna_search v0.0.1 DNASearch

Provides functions for getting DNA sequence data by organism name.

Summary

Functions

get_fasta_data(organism_name, options \\ [])

Returns a list of FASTA sequence data for the organism

get_sequences(organism_name, options \\ [])

Returns a list of sequence strings for the organism

Functions

get_fasta_data(organism_name, options \\ [])

Returns a list of FASTA sequence data for the organism.

Parameters

organism_name: name of the organism you’re interested in. works best as a species names, e.g. "Homo sapiens" over "human".
options (optional):
- See DNASearch.NCBI.get_fasta/2 for permitted options.

Examples

iex> fasta_data = DNASearch.get_fasta_data("Pionus maximiliani")
...> List.first(fasta_data)
%FASTA.Datum{
  header: "gi|925719343|gb|KR019962.1| Pionus maximiliani voucher PMAX-COESP chromo-helicase-DNA binding protein-Z (CHDZ) gene, exons 23, 24 and partial cds",
  sequence: "CGCGAAACAGGTGTCTCTTGGTTCCGACTGACCTGTGCTTTTATGAGCTTGTTGGTTTAGTTAGTTTGTTGGGGGTTGTTGGGTTTTGGGTTTGGGTTTTTTTCCTCCTTTTCTAGACACATATTTTTGACAGGCTGTATAAAACTTTACTTATCTTTGTTAATAATGTAGCTTTGAACTACTTATTCTGACATTCCAGATCAGCTTTAATGGAAGTGAAGGGAGGCGAAGTAGGAGTAGAAGATACTCTGGATCTGATAGTGACTCTATCTCGGAAAGGAAACGGCCAAAAAAGCGTGGAAGACCACGAACTATTCCTCGAGAAAATATT"
}

get_sequences(organism_name, options \\ [])

Returns a list of sequence strings for the organism.

Parameters

organism_name: name of the organism you’re interested in. works best as a species names, e.g. "Homo sapiens" over "human".
options (optional):
- See DNASearch.NCBI.get_fasta/2 for permitted options.

Examples

iex> [sequence] = DNASearch.get_sequences("Pionus maximiliani", limit: 1)
...> sequence
"CGCGAAACAGGTGTCTCTTGGTTCCGACTGACCTGTGCTTTTATGAGCTTGTTGGTTTAGTTAGTTTGTTGGGGGTTGTTGGGTTTTGGGTTTGGGTTTTTTTCCTCCTTTTCTAGACACATATTTTTGACAGGCTGTATAAAACTTTACTTATCTTTGTTAATAATGTAGCTTTGAACTACTTATTCTGACATTCCAGATCAGCTTTAATGGAAGTGAAGGGAGGCGAAGTAGGAGTAGAAGATACTCTGGATCTGATAGTGACTCTATCTCGGAAAGGAAACGGCCAAAAAAGCGTGGAAGACCACGAACTATTCCTCGAGAAAATATT"