CellDesigner/C2/Overview-of-CellDesigner/English - Revision history

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2016-06-10T10:11:53Z

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| style="border:0.75pt solid #000000;padding:0.071cm;"| <center>Visual cue</center>
| style="border:0.75pt solid #000000;padding:0.071cm;"| <center>Narration</center>

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 1

Title Slide
| style="border:0.75pt solid #000000;padding:0.071cm;"| Hello and welcome to this overview '''Spoken Tutorial''' on '''CellDesigner'''.

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 2

Learning objectives
| style="border:0.75pt solid #000000;padding:0.071cm;"| In this''' tutorial''', we will learn about-

* the '''CellDesigner''' series
* and the content available in various '''tutorials''' under this '''series'''.

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 4

This '''series '''is based on '''Version 4.3'''
| style="border:0.75pt solid #000000;padding:0.071cm;"| In this '''series''', I have used '''Version 4.3.'''

This was the latest available version at the time of creating this '''tutorial series.'''

'''Version 4.3 '''and above is recommended for practising these''' tutorials.'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 5

Note to learners:

First-time users of '''CellDesigner''' should go through the '''Startup Guide Version 4.3'''

| style="border:0.75pt solid #000000;padding:0.071cm;"| If you are a first-time user of '''CellDesigner'''-

* Please go through the '''Startup Guide Version 4.3'''

This contains step-by-step instructions of using the tool bar.

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 5

The '''link-'''

[http://celldesigner.org/documents/StartupGuide41.pdf http]
| style="border:0.75pt solid #000000;padding:0.071cm;"|
The''' link''' for the guide is as shown here.

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"|
| style="border:0.75pt solid #000000;padding:0.071cm;"| Now, we will briefly go through the individual '''tutorials''' in this '''series.'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 6

Installation of '''CellDesigner''' on '''Windows''' '''machine'''

| style="border:0.75pt solid #000000;padding:0.071cm;"| The very first '''tutorial''' in this '''series '''explains-

* Installation of '''CellDesigner''' on a '''Windows machine.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"| Show “'''Installation of''' '''CellDesigner on Windows'''” '''tutorial''' and play till end of the first sentence.
| style="border:0.75pt solid #000000;padding:0.071cm;"| Here is a glimpse of the '''tutorial.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 7

“'''Getting Started with CellDesigner'''”

* Menu and toolbars
* Areas in '''CellDesigner'''
* And '''Components''' in '''CellDesigner'''

| style="border:0.75pt solid #000000;padding:0.071cm;"| The next''' tutorial '''will help us to understand-

* Menu and toolbars
* Areas in '''CellDesigner'''
* And '''Components''' in '''CellDesigner'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 8

This tutorial was recorded on '''Windows OS'''.

'''Linux '''users should not skip this''' tutorial'''
| style="border:0.75pt solid #000000;padding:0.071cm;"| This '''tutorial '''was recorded on '''Windows OS'''.

However, all the features explained therein, will work in the same manner on '''Linux OS''', also.

'''Linux''' users should not skip this''' tutorial.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"| Show “'''Getting Started with CellDesigner'''” '''tutorial '''and play till end of the first sentence.
| style="border:0.75pt solid #000000;padding:0.071cm;"| Let us have a look at this''' tutorial.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 9

“'''Installation of CellDesigner on Linux'''”
| style="border:0.75pt solid #000000;padding:0.071cm;"| The next''' tutorial '''is '''Installation of CellDesigner on Linux.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"| Show ““'''Installation of CellDesigner on Linux'''” '''tutorial''' and play till end of the first sentence.
| style="border:0.75pt solid #000000;padding:0.071cm;"| Here is a glimpse of the''' tutorial.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 10

====== Create and Edit Components ======
* To open an already saved''' .xml file'''
* Change the size, shape, color and thickness of the border in a '''Compartment'''.
* Create''' multiple files '''in''' CellDesigner.'''
* Learn about '''start-point '''and''' end-point''' of a '''Species.'''
* Change identity of '''Species''' and '''Reaction.'''

| style="border:0.75pt solid #000000;padding:0.071cm;"| The next tutorial is ‘'''Create and Edit Components'''’.

This will help us to know how-

* To open an already saved''' .xml file'''
* Change the size, shape, color and thickness of the border in a '''Compartment'''.
* Create '''multiple files''' in''' CellDesigner.'''
* Learn about '''start-point '''and''' end-point''' of a '''Species.'''
* Change identity of '''Species''' and '''Reaction.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"|
Show “'''Create and Edit Components'''” '''tutorial '''and play till end of the first sentence.

| style="border:0.75pt solid #000000;padding:0.071cm;"|
Let me play this '''tutorial.'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 11

'''“Build and Modify Process Diagram”'''
| style="border:0.75pt solid #000000;padding:0.071cm;"|
The next''' tutorial '''will explain how to-

* Use '''Macros'''
* Move all '''components''' to another side of the '''draw area'''
* Align a '''Reaction line'''
* Extend a '''Reaction line '''and
* '''Build''' a '''Process diagram''' using '''CellDesigner.'''

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"|
Show '''“Build and Modify Process Diagram” tutorial''' and play till end of the first sentence.

| style="border:0.75pt solid #000000;padding:0.071cm;"|
Let’s have a look at this''' tutorial.'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 12

“'''Customizing Diagram Layout'''”

| style="border:0.75pt solid #000000;padding:0.071cm;"|
The next tutorial ‘'''Customizing Diagram Layout’''' will explain how to-

* Change color, shape and width of a '''Reaction line.'''
* Add '''Anchor points '''to a '''Reaction line.'''
* Align '''Components.'''
* Show/hide '''Reaction ids'''
* Add notes to '''Components'''
* '''Edit Protein'''
* '''Edit information '''and
* Get a '''bird’s eye view''' of the '''diagram'''.

|-
| style="border:0.75pt solid #000000;padding:0.071cm;"|
Show “'''Customizing Diagram Layout'''” '''tutorial '''and play till end of the first sentence.

| style="border:0.75pt solid #000000;padding:0.071cm;"|
Here is a glimpse of the''' tutorial.'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 13

Summary Slide
|style="border:0.75pt solid #000000;padding:0.071cm;"|Let us summarize:

In this '''tutorial''' we learnt about-

The '''Overview''' of the '''CellDesigner''' series.

Please refer '''http://spoken-tutorial.org''' for the detailed '''tutorials''' on each topic mentioned.

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 14

Acknowledgement
| style="border:0.75pt solid #000000;padding:0.071cm;"|
About the '''Spoken Tutorial project-'''

* Watch the video at the following link
* It summarizes the '''Spoken Tutorial project.'''
* If you do not have a good '''bandwidth '''please download and watch it.

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 15
| style="border:0.75pt solid #000000;padding:0.071cm;"|
The '''Spoken Tutorial Project '''Team -

* Conducts '''Workshops'''
* And gives '''certificates''' to those who pass an '''online''' test.
* For more details, please write to '''contact@spoken-tutorial.org'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"| Slide 16
| style="border:0.75pt solid #000000;padding:0.071cm;"|
'''Spoken Tutorial Project''' is a part of '''Talk to a Teacher project.'''

It is funded by '''NMEICT, MHRD, Government of India.'''

More information on this '''Mission''' is available at the given link.

'''http://spoken-tutorial.org/NMEICT-Intro'''

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| style="border:0.75pt solid #000000;padding:0.071cm;"|
This is Bella Tony from '''IIT Bombay '''signing off.

Thank you for joining.

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