add chira to index-rna and tools.yml (usegalaxy-eu#377)

_data/tools.yml

@@ -230,3 +230,8 @@ Train and evaluation: toolshed.g2.bx.psu.edu/repos/bgruening/keras_train_and_eva
 Regression performance plots: toolshed.g2.bx.psu.edu/repos/bgruening/plotly_regression_performance_plots/plotly_regression_performance_plots
 ML performance plots: toolshed.g2.bx.psu.edu/repos/bgruening/plotly_ml_performance_plots/plotly_ml_performance_plots
 Table compute: toolshed.g2.bx.psu.edu/repos/iuc/table_compute/table_compute
+ChiRA-collapse: toolshed.g2.bx.psu.edu/repos/iuc/chira/chira_collapse
+ChiRA-map: toolshed.g2.bx.psu.edu/repos/iuc/chira/chira_map
+ChiRA-merge: toolshed.g2.bx.psu.edu/repos/iuc/chira/chira_merge
+ChiRA-quantify: toolshed.g2.bx.psu.edu/repos/iuc/chira/chira_quantify
+ChiRA-extract: toolshed.g2.bx.psu.edu/repos/iuc/chira/chira_extract

index-rna.md

@@ -116,6 +116,14 @@ Tool | Description | Reference
 {% include tool.html id="Piranha" %} | A peak-caller for CLIP- and RIP-seq data | -
 {: .table.table-striped .tooltable}
 
+## RNA-RNA interaction
+
+Tool | Description | Reference
+--- | --- | ---
+{% include tool.html id="ChiRA-collapse" label="C" %}{% include tool.html id="ChiRA-map" label="h" %}{% include tool.html id="ChiRA-merge" label="i" %}{% include tool.html id="ChiRA-quantify" label="R" %}{% include tool.html id="ChiRA-extract" label="A" %} | A set of tools to analyze RNA-RNA interactome experimental data such as CLASH, CLEAR-CLIP, PARIS, LIGR-Seq etc | -
+{: .table.table-striped .tooltable}
+
+
 ## RNA target prediction
 
 Tool | Description | Reference
@@ -130,7 +138,7 @@ Tool | Description | Reference
 Tool | Description | Reference
 --- | --- | ---
 {% include tool.html id="FastQC" %} | A quality control tool for high throughput sequence data | -
-{% include tool.html id="Trim Galore" label="Trim Galore!" %} | Automatic quality and adapter trimming as well as quality control | -
+{% include tool.html id="TrimGalore" label="Trim Galore!" %} | Automatic quality and adapter trimming as well as quality control | -
 {: .table.table-striped .tooltable}
 
 ### RNA-Seq