rbbt-sources 3.1.10 → 3.1.11
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/rbbt/sources/tfacts.rb +6 -4
- metadata +11 -11
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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---
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SHA1:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 9883483307ee8d88dcc1b7a8ce6e82e2a1521f7e
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4
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data.tar.gz: ce5f86b1db3b370ccb53539641de478fb5aef1e3
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SHA512:
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metadata.gz:
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data.tar.gz:
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metadata.gz: 312842cd07dc73920d0e346d43d4c228c0d48c4d441b421fb5b27e975d7a42fe72af1ccfa864695e86d4b63c1621f4b3731f39ae7f17e105b3ea544eb198fd27
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7
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data.tar.gz: d0c9288317e0cdf83a2862c79e0c8713bf521c1c1e0596d7e6c91ba01a38cdc6b2d953f9ff8b8674fd63a34807876e390927fc525e1102cbe57e87d80486f076
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data/lib/rbbt/sources/tfacts.rb
CHANGED
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@@ -27,15 +27,17 @@ module TFacts
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TFacts.claim TFacts.targets_signed, :proc do
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require 'spreadsheet'
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book = Spreadsheet.open TFacts[".source"]["Catalogues.xls"].produce.find
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-
sheet = book.worksheet
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sheet = book.worksheet 1
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tsv = TSV.setup({}, :key_field => "Target Gene (Associated Gene Name)", :fields => ["Transcription Factor (Associated Gene Name)", "Sign"], :namespace => "Hsa", :type => :double)
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tsv = TSV.setup({}, :key_field => "Target Gene (Associated Gene Name)", :fields => ["Transcription Factor (Associated Gene Name)", "Sign", "PMID"], :namespace => "Hsa", :type => :double)
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sheet.each do |row|
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target, tf, sign = row.values_at
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target, tf, sign, pmid = row.values_at(0, 1, 2, 5).collect{|e| e.to_s.gsub("\n", " ") }
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pmid = pmid.split(";").select{|p| p =~ /^\d{5,}$/ }
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next if tf =~ /OFFICIAL_/
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-
tsv[target] ||= [[],[]]
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tsv[target] ||= [[],[],[]]
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tsv[target][0] << tf
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tsv[target][1] << sign
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tsv[target][2] << pmid * ";"
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end
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tsv.to_s
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metadata
CHANGED
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@@ -1,14 +1,14 @@
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--- !ruby/object:Gem::Specification
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name: rbbt-sources
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version: !ruby/object:Gem::Version
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version: 3.1.
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version: 3.1.11
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platform: ruby
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authors:
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- Miguel Vazquez
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autorequire:
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bindir: bin
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cert_chain: []
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date: 2017-02-
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date: 2017-02-21 00:00:00.000000000 Z
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dependencies:
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- !ruby/object:Gem::Dependency
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name: rbbt-util
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@@ -180,19 +180,19 @@ signing_key:
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specification_version: 4
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summary: Data sources for the Ruby Bioinformatics Toolkit (rbbt)
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test_files:
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-
- test/test_helper.rb
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- test/rbbt/sources/test_pubmed.rb
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- test/rbbt/sources/
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- test/rbbt/sources/test_gscholar.rb
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- test/rbbt/sources/test_pharmagkb.rb
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- test/rbbt/sources/test_biomart.rb
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-
- test/rbbt/sources/
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- test/rbbt/sources/test_gscholar.rb
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- test/rbbt/sources/test_kegg.rb
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- test/rbbt/sources/test_pina.rb
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- test/rbbt/sources/test_entrez.rb
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- test/rbbt/sources/test_pharmagkb.rb
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- test/rbbt/sources/test_organism.rb
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- test/rbbt/sources/test_matador.rb
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- test/rbbt/sources/
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- test/rbbt/sources/test_kegg.rb
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- test/rbbt/sources/test_HPRD.rb
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- test/rbbt/sources/test_synapse.rb
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- test/rbbt/sources/test_go.rb
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- test/rbbt/sources/test_stitch.rb
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- test/rbbt/sources/
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- test/rbbt/sources/test_organism.rb
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- test/rbbt/sources/test_string.rb
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- test/rbbt/sources/test_tfacts.rb
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- test/test_helper.rb
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