bio-fasta_retrieve 0.0.4 → 0.0.5
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- checksums.yaml +4 -4
- data/lib/bio-fasta_retrieve.rb +8 -6
- metadata +1 -1
checksums.yaml
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SHA1:
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metadata.gz:
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data.tar.gz:
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metadata.gz: d3b63b0ca6955d7354b0ed2efb8abfa5687532fd
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data.tar.gz: 59b6c6ecb9aff21fbb2e02798868ff5f2c2699c7
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SHA512:
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metadata.gz:
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metadata.gz: db39c28f937d307baa9ddcc6eb601bd563a1f1644bb70600da2cd19b888bcd33bef4536c98d0eb42d48748393e9fd1b98db57b9c4781ab506b637eda69cd3a65
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data.tar.gz: afe597861c46696c36542687e056431579baa808852dd2239880a2e4643e0fbca76547017f41d4c0a5d3ea96338a21ed6039a21ff3722200f3b7137573db542b
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data/lib/bio-fasta_retrieve.rb
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#
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# Copyright:: Copyright (C) 2015
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# Andrei Rozanski <rozanski.andrei@gmail.com>
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# License:: The Ruby License
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module FastaRetriever
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class Retriever
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# Example:
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# >> Retriever.retrieve("hg19","chr1","1000","2000")
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#
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# Arguments:
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# language: (String)
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#
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require 'bio' # For creation of fasta object.
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require 'nokogiri' # For sequence retrieve and parse.
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def initialize;end
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#input organism, chromosome, start, end separated by space (i.e. hg19 chr10 1000 2000)
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def self.retrieve(organism,chr,start_coord,end_coord)
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address="http://genome.ucsc.edu/cgi-bin/das/#{organism}/dna?segment=#{chr}:#{start_coord},#{end_coord}"
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