drforna

Introduction

Dr. Forna is a web component for visualizing co-transcriptional RNA folding.

As input it takes a space separated values (ssv) file:

id time conc struct energy
1 0.340000 1.000000 .................   0.00
1 0.360000 1.000000 ..................   0.00
1 0.380000 1.000000 ...................   0.00
2 0.380001 1.537182e-03 .(((.((((...)))).)))  -3.60
1 0.380001 9.984628e-01 ....................   0.00
2 0.38000274542 4.214534e-03 .(((.((((...)))).)))  -3.60
1 0.38000274542 9.957855e-01 ....................   0.00
2 0.38000753733 1.152803e-02 .(((.((((...)))).)))  -3.60
1 0.38000753733 9.884720e-01 ....................   0.00
2 0.38002069313 3.133086e-02 .(((.((((...)))).)))  -3.60
1 0.38002069313 9.686691e-01 ....................   0.00
2 0.38005681134 8.367606e-02 .(((.((((...)))).)))  -3.60

Where id groups structures, time is the time point for which the structure and the concentration are measures. conc is the occupancy of that structures at that time point. The secondary structure is encoded as a dot-bracket string in the struct column while the free energy (in kcal / mol) is shown in the energy column.

Screenshot

Starting the Web Server

To start this project in development mode, please run:

npm install
bower install
gulp serve

To build a release version run:

gulp build

And find the output files in the dist/scripts directory.