rbbt-study 0.2.27 → 0.2.28
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- checksums.yaml +4 -4
- data/lib/rbbt/entity/study/genotypes/genes.rb +1 -1
- data/lib/rbbt/entity/study.rb +1 -2
- metadata +2 -2
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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1
1
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---
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2
2
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SHA1:
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3
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-
metadata.gz:
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4
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-
data.tar.gz:
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3
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+
metadata.gz: 94ed5774fb52f6ce952c6796655220ec9dc00508
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4
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+
data.tar.gz: f804769048c718f3f47a5d2ee0a5b06d557b9d3d
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5
5
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SHA512:
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6
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-
metadata.gz:
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7
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-
data.tar.gz:
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6
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+
metadata.gz: 1f6b416ff8c76b609fea12b176d484d4e6f5ac515ffa8d33ebe184acde99a21731ffda840438127d607b9ac6908a79e0a6b0558336d82696b6a50358235d2d10
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7
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+
data.tar.gz: 1128df2a2fed39770545c089bf702ee730c681b9ed5c0ca5a5d036df573d7c53afa3db0ed8342b26f3ea0d30371af566c24a4044c77ad3c5615be992cb43110b
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@@ -66,7 +66,7 @@ module Study
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66
66
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next unless relevant_mutations.include? mutation
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67
67
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genes = []
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68
68
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mis = mutation.mutated_isoforms
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69
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-
genes.concat mis.select_by(:
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69
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+
genes.concat mis.select_by(:non_synonymous).transcript.gene unless mis.nil? or mis.empty?
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70
70
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genes.concat mutation.transcripts_with_affected_splicing.gene
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71
71
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genes.uniq.each{|gene| samples_with_gene_affected[gene] ||= []; samples_with_gene_affected[gene] << genotype.jobname}
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72
72
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end
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data/lib/rbbt/entity/study.rb
CHANGED
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@@ -167,7 +167,6 @@ module Study
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167
167
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end
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168
168
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samples = dir.matrices[type].samples.find if dir.matrices[type].samples.exists?
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169
169
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samples = dir.samples.find if samples.nil? and dir.samples.exist?
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170
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-
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171
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-
Matrix.new(data, identifiers, samples, format, organism)
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170
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+
Matrix.new(data, samples, "count", format, organism, identifiers)
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172
171
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end
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173
172
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end
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metadata
CHANGED
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@@ -1,14 +1,14 @@
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1
1
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--- !ruby/object:Gem::Specification
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2
2
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name: rbbt-study
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3
3
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version: !ruby/object:Gem::Version
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4
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-
version: 0.2.
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4
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+
version: 0.2.28
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5
5
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platform: ruby
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6
6
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authors:
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7
7
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- Miguel Vazquez
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8
8
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autorequire:
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9
9
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bindir: bin
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10
10
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cert_chain: []
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11
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-
date: 2014-03-
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11
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+
date: 2014-03-26 00:00:00.000000000 Z
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12
12
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dependencies: []
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13
13
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description: This gem add the study entity with suport for NGS, Microarray and other
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14
14
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types of data
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