summaryrefslogtreecommitdiff
diff options
context:
space:
mode:
authorgebele <gebele@in-silico.ch>2018-03-20 16:57:19 +0100
committergebele <gebele@in-silico.ch>2018-03-20 16:57:19 +0100
commit245a13f5e8e887ea0884eebe15845b8d768b1e71 (patch)
tree65cef5509c27ad326acc1c04a4f36cbdd14d8d3e
parentc9def4631ced0e06c4c10bbbc84d7e7fe313f91b (diff)
updated faq and qmrf report
-rw-r--r--FAQ.md24
-rw-r--r--qmrf_report.rb14
2 files changed, 35 insertions, 3 deletions
diff --git a/FAQ.md b/FAQ.md
index 2530968..24283cb 100644
--- a/FAQ.md
+++ b/FAQ.md
@@ -1,6 +1,6 @@
-## lazar Frequently Asked Questions
+## *lazar* Frequently Asked Questions
-####The LAZAR program's interface has changed, and I am not sure how to use the information given with regard to its confidence. In the former version, I would consider a confidence value higher than 0.025 as reliable. But now, there is no such parameter in the prediction results. How can I consider a prediction as presenting high or low confidence?
+#### The *lazar* program's interface has changed, and I am not sure how to use the information given with regard to its confidence. In the former version, I would consider a confidence value higher than 0.025 as reliable. But now, there is no such parameter in the prediction results. How can I consider a prediction as presenting high or low confidence?
In the past many users had problems to interpret the confidence level,
for this reason we provide now the probabilities that the prediction
@@ -16,3 +16,23 @@ activities of similar compounds.
Probabilities are calculated from the activities and similarities of
neighbors, please make sure to inspect the neighbors list for any
inconsistencies that might affect the prediction.
+
+#### How can I use *lazar* locally on my computer
+If you are familiar with docker, you can use one of our docker images to run lazar locally:
+https://hub.docker.com/r/insilicotox/lazar
+https://hub.docker.com/r/insilicotox/nano-lazar
+
+If you want to install lazar/nano-lazar without docker you should know how to use UNIX/Linux and the Ruby programming language. Source code and brief installation instructions for the GUIs is available at:
+
+https://github.com/opentox/lazar-gui
+https://github.com/opentox/nano-lazar
+
+You can also use just the libraries from the command line:
+
+https://github.com/opentox/lazar
+
+Documentation is available at:
+
+http://www.rubydoc.info/gems/lazar
+
+lazar depends on a couple of external libraries and programs, that could be difficult to install. Due to limited resources we cannot provide support, please use the docker version if you cannot manage it on your own.
diff --git a/qmrf_report.rb b/qmrf_report.rb
index b52e618..a031305 100644
--- a/qmrf_report.rb
+++ b/qmrf_report.rb
@@ -27,10 +27,22 @@ def qmrf_report id
# Date of QMRF 2.1
report.value "qmrf_date", "#{Time.now.strftime('%d %B %Y')}"
- # QMRF author(s) and contact details 2.1
+ # QMRF author(s) and contact details 2.2
report.change_catalog :authors_catalog, :firstauthor, {:name => "Christoph Helma", :affiliation => "in silico toxicology gmbh", :contact => "Rastatterstr. 41, CH-4057 Basel", :email => "info@in-silico.ch", :number => "1", :url => "www.in-silico.ch"}
report.ref_catalog :qmrf_authors, :authors_catalog, :firstauthor
+ # Date of QMRF update(s) 2.3
+ if prediction_model.name =~ /TD50|multiple/
+ report.value "qmrf_date_revision", "2014-12-05"
+ end
+
+ # Date of QMRF update(s) 2.4
+ if prediction_model.name =~ /TD50/
+ report.value "qmrf_revision", "Q29-44-39-423"
+ elsif prediction_model.name =~ /multiple/
+ report.value "qmrf_revision", "Q28-43-38-420"
+ end
+
# Model developer(s) and contact details 2.5
report.change_catalog :authors_catalog, :modelauthor, {:name => "Christoph Helma", :affiliation => "in silico toxicology gmbh", :contact => "Rastatterstr. 41, CH-4057 Basel", :email => "info@in-silico.ch", :number => "1", :url => "www.in-silico.ch"}
report.ref_catalog :model_authors, :authors_catalog, :modelauthor