Templates

Database structure

Where to put reads, how to organise them?

See db_structure.md

Project directory structure

See project_structures.md

Building command line application using Ruby

Clone this repository.

$ git clone https://github.com/wurmlab/templates.git

Alternatively, you can download zip archive by clicking on the 'Download ZIP' button on the right.

Then cd to directory where you want to create your app and run the rbgen command included in this repository.

$ path/to/templates/rbgen app_name

For example: ~/gitstuff/templates/rbgen transcript_analyser

This generates a sample Ruby app that given a list of sequence ids in a text file will download corresponding sequences in FASTA format. More information on how to use and edit the sample app to your requirements can be found in the README.md file of the generated sample app.