Tutorials

For Help/Support: contact@bioinfo.no

  • Please Refresh this page few times, if videos are not loaded properly. 
  • Tutorials on this page have been updated on January 03, 2017.

Video Tutorials on NeLS-portal, NeLS-Galaxy and StoreBioInfo

 

NeLS1

NeLS (Norwegian e-Infrastructure for Life Sciences) is one of the packages of the ELIXIR.NO project and a part of ELIXIR Norway and ELIXIR Europe projects. NeLS package provides various services, for example, NeLS-portal (https://nels.bioinfo.no/) and NeLS Galaxy (https://galaxy-uib.bioinfo.no/). NeLS-portal also facilitates the users to transfere data to StoreBioInfo (https://storebioinfo.norstore.no/).


 


Click the links/heading/points to watch Video Tutorials available below 


1. NeLS-portal

  1.1. Introduction of NeLS-portal

  1.2. How to Login and Logout on NeLS portal

  1.3. What is Inside the NeLS-portal

  1.4. How to Upload File and Create Folder on NeLS-portal

  1.5. How to Manage "My Data" and "My Projects" inside the NeLS-portal

  1.6. How to Connect to TSD

  1.7. How to Work under StoreBioInfo

  1.8. How to work using Available Pipeline

  1.9. What are the Connection Details

  1.10. How to get Help Support

  1.11. How to connect 'WinSCP and Putty' to NeLS-portal

  1.12. How to connect FileZilla to NeLS-portal

  1.13. How to Login on NeLS using ssh command

  1.14. How to Transfer file to NeLS-portal using scp command line

  1.15. How to Transfer file from NeLS-portal to your pwd using scp command

  1.16. How to make a Shell script to Transfer file to NeLS-portal


 

2. NeLS-Galaxy

  2.1. What is NeLS-Galaxy

  2.2. How to Login and Logput on NeLS-Galaxy

  2.3. Main Menu Inside the NeLS-Galaxy

  2.4. Tools Inside the NeLS-Galaxy

  2.5. History Inside the NeLS-Galaxy

  2.6. How to Upload Data on NeLS-Galaxy

  2.7. How to Download and Transfer Data inside NeLS-Galaxy

  2.8. How to Run a Tool inside NeLS-Galaxy

  2.9. Data Collection Terms used in NeLS-Galaxy

    2.10. How to Build Dataset List (Data Collection) in NeLS-Galaxy

    2.11. How to Build Dataset Pair (Data Collection) in NeLS-Galaxy

    2.12. How to Build Dataset Pair List (Data Collection) in NeLS-Galaxy

    2.13. What is Workflow in NeLS-Galaxy

    2.14. How to Create Simple Workflow in NeLS-Galaxy

    2.15. How to Run Simple in NeLS-Galaxy

    2.16. How to Create Complex/Advanced Workflow in NeLS-Galaxy

    2.17. How to Run Complex/Advanced Workflow in NeLS-Galaxy

    2.18. How to Share History inside NeLS-Galaxy


 

3. StoreBioInfo

  3.1. How to Login and Logout on StoreBioInfo

  3.2. Introduction of StoreBioInfo

  3.3. How to Accept a Project Invitation on StoreBioInfo

  3.4. Working under a Project on StoreBioInfo


 

1. NeLS portal:

NeLS (Norwegian e-Infrastructure for Life Sciences) portal is a Norwegian portal that provides data storage for life science researchers.

On the NeLS portal, you can:

    1. Upload your data from your computer

    2. Maintain and Manage your data; i.e. copy, paste, delete, and create, rename file/folder

    3. Your data can be used to upload on Galaxy and transfer back to NeLS portal

    4. Transfer your data to StoreBioInfo and back to NeLS portal.

Click here to go Back

1.1. Introduction of NeLS-portal

Click here to go Back

1.2. How to Login and Logout on NeLS portal

 Click here to go Back

1.3. What is Inside the NeLS-portal

 Click here to go Back

1.4. How to Upload File and Create Folder on NeLS-portal

 Click here to go Back

1.5. How to Manage "My Data" and "My Projects" inside the NeLS-portal

 Click here to go Back

1.6. How to Connect to TSD

 Click here to go Back

1.7. How to Work under StoreBioInfo

 Click here to go Back

1.8. How to work using Available Pipeline

Coming Soon ... :)

 Click here to go Back

1.9. What are the Connection Details inside the NeLS-portal

 Click here to go Back

1.10. How to get Help Support

 Click here to go Back

1.11. How to connect 'WinSCP and Putty' to NeLS-portal

Click here to go Back 

1.12. How to connect FileZilla to NeLS-portal

 Click here to go Back

1.13. How to Login on NeLS using ssh command

Note: If you are on linux server and trying to do ssh to NeLS-portal, then please:

1. Download/keep your key file, preferably, under your /Home/username/.ssh directory (/Home/username/.ssh/your_NeLS-portal_key_file .txt)

2. Always use full/absolute path of your key file /Home/username/.ssh/your_NeLS-portal_key_file.txt 

 Click here to go Back

1.14. How to Transfer file to NeLS-portal using scp command

Note: If you are on linux server and trying to do ssh to NeLS-portal, then please:

1. Download/keep your key file, preferably, under your /Home/username/.ssh directory (/Home/username/.ssh/your_NeLS-portal_key_file .txt)

2. Always use full/absolute path of your key file /Home/username/.ssh/your_NeLS-portal_key_file.txt  

 Click here to go Back

1.15. How to Transfer file from NeLS-portal to your pwd using scp command

Note: If you are on linux server and trying to do ssh to NeLS-portal, then please:

1. Download/keep your key file, preferably, under your /Home/username/.ssh directory (/Home/username/.ssh/your_NeLS-portal_key_file .txt)

2. Always use full/absolute path of your key file /Home/username/.ssh/your_NeLS-portal_key_file.txt 

 Click here to go Back

1.16. How to make a Shell script to Transfer file to NeLS-portal

Note: Please use the following command to change the key file permission before using it as a key file:

$ chmod 600 your_NeLS-portal_key_file.txt

Note: If you are on linux server and trying to do ssh to NeLS-portal, then please:

1. Download/keep your key file, preferably, under your /Home/username/.ssh directory (/Home/username/.ssh/your_NeLS-portal_key_file .txt)

2. Always use full/absolute path of your key file /Home/username/.ssh/your_NeLS-portal_key_file.txt 

 Click here to go Back


2. NeLS-Galaxy

NeLS-Galaxy is a web-based platform for data intensive life science research that provides users with a unified, easy-to-use graphical interface to a host of different analysis tools. These tools can be run interactively, one by one, or combined into multi-step workflows that can be executed as a single analysis. There are total five Galaxy servers maintained by Norwegian Bioinformatics platform:

1. NeLS-Galaxy at University of Bergen

2. NeLS-Galaxy at University of Oslo

3. NeLS-Galaxy at University of Tromso

4. NeLS-Galaxy at University of Norwegian University of Science and Technology

5. NeLS-Galaxy at University of Norwegian University of Life Sciences

Note: The Galaxy installations at each of the participating universities have differing focus and may offer different sets of tools and functionalities.

Click here to go Back

2.1. What is NeLS-Galaxy

 Click here to go Back

2.2. How to Login and Logput on NeLS-Galaxy

 Click here to go Back

2.3. Main Menu Inside the NeLS-Galaxy

 Click here to go Back

2.4. Tools Inside the NeLS-Galaxy

 Click here to go Back

2.5. History Inside the NeLS-Galaxy

 Click here to go Back

2.6. How to Upload Data on NeLS-Galaxy

 Click here to go Back

2.7. How to Download and Transfer Data inside NeLS-Galaxy

 Click here to go Back

2.8. How to Run a Tool inside NeLS-Galaxy

 Click here to go Back

2.9. Data Collection Terms used in NeLS-Galaxy

Any file inside NeLS-Galaxy's History is called a 'Dataset'.  

Data Collection: You can build/create three kind of  Data Collection as follows: 

1. Dataset List: This contains two or more 'Dataset'

2. Dataset Pair: This contains two related 'Dataset'; i.e. forward and reverse of paired-end sequencing run

3. List of Dataset Pair: This contains two related 'Dataset Pair' (normally replicates).

Tutorials are available on this page explaining 'How to Build Data Collection'.

2.10. How to Build 'Dataset List' (Data Collection) in NeLS-Galaxy

 Click here to go Back


2.11. How to Build 'Dataset Pair' (Data Collection) in NeLS-Galaxy

Click here to go Back

 

2.12. How to Build 'List of Dataset Pair' (Data Collection) in NeLS-Galaxy

Click here to go Back


2.13. What is Workflow in NeLS-Galaxy

Click here to go Back


2.14. How to Create Simple Workflow in NeLS-Galaxy

2.15. How to Run Simple in NeLS-Galaxy

Click here to go Back

2.16. How to Create Complex Workflow in NeLS-Galaxy

Click here to go Back

2.17. How to Run Complex Workflow in NeLS-Galaxy

Coming soon :)

Click here to go Back

2.18. How to Share History inside the NeLS-Galaxy

 


 

3. StoreBioInfo:

This portal provides long term storage of data. Data from the NeLS portal can be transfered to StoreBioInfo and back to NeLS portal.

3.1. How to Login and Logout on StoreBioInfo:

 Click here to go Back

3.2. Introduction of StoreBioInfo :

 Click here to go Back

3.3. How to Accept a Project Invitation on StoreBioInfo :

Click here to go Back 

3.4. Working under a Project on StoreBioInfo :

This tutorial will be available sooooon ...

 Click here to go Back