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title GeneValidator: identify problems with gene predictions
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h2 Loading ...
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p This operation is not posible. There seems to be too many queries...
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strong#mainbrowseralertText Sorry, viewing graphs is not supported when opening the results directly in a browser.
br
strong Please run the following command in your terminal:
pre style="background-color: #f2dede"
| genevalidator serve #{@dirs[:output_dir]}
p This is because browsers disable access to local files due to security reasons.
.container
span.menu_icon.pull-right
a href="#" onclick="GV.toggleAllPlots(this);"
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span#show_all_plots Show All Charts
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a href="https://github.com/wurmlab/genevalidator" target="_blank"
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| Source Code
span.menu_icon.pull-right
a href="http://wurmlab.github.io/tools/genevalidator/"
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| About
.clearfix
img.logo alt="logo" src="html_files/img/gene.png" /
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| Gene Validator
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| v#{GeneValidator::VERSION}
h4.subheading Identify Problems with Gene Predictions
#overview.text-left style="margin-top:20px"
#overview_text
button#overview_btn.btn.btn-primary.btn-sm data-toggle="button" onclick="GV.toggleOverviewBtn();" data-overviewjson="html_files/json/overview.json"
- if @all_html_fnames.length > 1
nav
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- @all_html_fnames.each_with_index do |file, idx|
li
a href="#{File.basename(file)}"
= idx + 1
table#sortable_table.table.table-striped.table-collapsed.table-bordered.table-condensed.tablesorter style="margin-top:20px"
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tr#header
th #
th Ranking
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| Sequence Definition
span data-placement="top" data-toggle="tooltip" title=("Query definition as it apears in the input fasta file.")
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| No. Hits
span data-placement="top" data-toggle="tooltip" title=("Number of non-identical hits found by BLAST.")
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- @json_data_section[0][:validations].each do |_short_header, item|
th.sorter-false
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= item[:header]
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- if item[:header] == "Length Cluster" || item[:header] == "Gene Merge" || item[:header] == "Main ORF" || item[:header] == "Missing/Extra Sequences"
span data-placement="top" data-toggle="tooltip" title=("Charts available for this validation")
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span data-placement="top" data-toggle="tooltip" title="#{item[:description]}"
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tbody
- @json_data_section.each do |row|
tr data-jsonfile="html_files/json/#{@dirs[:filename]}_#{row[:idx]}.json" data-target="toggle#{row[:idx]}"
td title="idx" = row[:idx]
td data-score="#{row[:overall_score]}"
.ratings
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.full-stars style=("width:#{row[:overall_score]}%;")
td title="Definition" = row[:definition]
td title=("No. Hits") = row[:no_hits]
- row[:validations].each do |_short_header, item|
td class="#{item[:status]}" title="#{item[:header]}"
== item[:print].gsub(' ', ' ').gsub('; ', '; ')
- if row[:validations].select { |_short_header, item| item[:graphs] != nil }.map{ |_short_header, item| item[:graphs].length }.inject(0) { |r, e| r + e } != 0
td
button.plot_btn.btn.btn-default title=("Show plots")
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- else
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- if @all_html_fnames.length > 1
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- @all_html_fnames.each_with_index do |file, idx|
li
a href="#{File.basename(file)}"
= idx + 1
footer
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| Please cite:
a href="https://academic.oup.com/bioinformatics/article/32/10/1559/1742817/GeneValidator-identify-problems-with-protein"
| "Dragan M
sup> ‡
| , Moghul MI
sup> ‡
| , Priyam A, Bustos C & Wurm Y
em (2016)
| GeneValidator: identify problematic gene predictions"
br/
| Developed at
a href="https://wurmlab.github.io" target="_blank" Wurm Lab
| ,
a href="http://www.sbcs.qmul.ac.uk" target="_blank" QMUL
| with funding by
a href="http://www.bbsrc.ac.uk/home/home.aspx" target="_blank" BBSRC
| and
a href="https://www.google-melange.com/gsoc/homepage/google/gsoc2013" target="_blank" Google Summer of Code 2013
br/
| This page was created by
a href="https://wurmlab.github.io/tools/genevalidator/" target="_blank" GeneValidator
| v#{GeneValidator::VERSION}