gene-matcher 0.1.3 → 0.1.5
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- checksums.yaml +4 -4
- data/lib/alignment.rb +18 -2
- data/lib/gene-matcher.rb +2 -1
- metadata +2 -2
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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---
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SHA256:
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metadata.gz:
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data.tar.gz:
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metadata.gz: f451b24184e517be0bfdf398c1ad227be0c956a7e3173f7a31a45530af64291d
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4
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data.tar.gz: ee44f41ce12e8ac4a311c58a59339621230513bbe6202083bae3f044f830f4c6
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 7237131d90e3fed9a1f935c818bd75c8179a3de6a0bbcf4b7073cced5c3bc314a769680e73cfe46f3f228328427e447e0ee7fb22ec632920eea0b14c29510c98
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7
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data.tar.gz: 27614deb05f5649814174f3c5e4f8b771d3610c4dd9d8034409326f7dff77a32140e1fd038e6f055b1aa1661f0d3ea7ffe18cd0856617bd30c524ef5a28ee9b2
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data/lib/alignment.rb
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@@ -21,8 +21,8 @@ class Alignment
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@reversed = false
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# 逆の鎖
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@aside = false
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#
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@source =
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# アライメント対象配列の取得先情報(任意)。例えば、データベースのテーブル名やIDなど。
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@source = {}
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end
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def init_from_hash(h)
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@@ -39,6 +39,22 @@ class Alignment
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@source = h["source"]
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end
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def to_h
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# ハッシュに変換
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h = {}
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h["score"] = @score
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h["alignmentI"] = @alignmentI
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h["alignmentJ"] = @alignmentJ
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h["startI"] = @startI
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h["startJ"] = @startJ
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h["endI"] = @endI
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h["endJ"] = @endJ
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h["reversed"] = @reversed
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h["aside"] = @aside
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h["source"] = @source
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return h
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end
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# 二つの配列の一致部分と不一致部分を表した文字列を返す。
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# ex. AGTCAAAAAAAAA- :...:::::::::. AT-TAAAAAAAAAG
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#
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data/lib/gene-matcher.rb
CHANGED
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@@ -11,9 +11,10 @@ class Matcher
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@alignments = []
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end
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-
def scan(target_sequence)
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def scan(target_sequence,source = {})
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sw = SmithWaterman.instance
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a = sw.alignment(target_sequence, @input_sequence)
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a.source = source
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@alignments += [a] if a.score >= @limit
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end
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end
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metadata
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@@ -1,14 +1,14 @@
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--- !ruby/object:Gem::Specification
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name: gene-matcher
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version: !ruby/object:Gem::Version
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version: 0.1.
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version: 0.1.5
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platform: ruby
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authors:
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- ITO Yosei
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2023-08-
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date: 2023-08-31 00:00:00.000000000 Z
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dependencies: []
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description: Algorithm for determining similar regions between nucleic acid sequences.
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email: y-itou@lumber-mill.co.jp
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