NeatSeq-Flow’s Module and Workflow Repository

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Documentation Status

NeatSeq-Flow is a lightweight software for efficient execution of high throughput sequencing workflows. See the NeatSeq-Flow documentation at http://neatseq-flow.readthedocs.io/en/latest/.

NeatSeq-Flow is available for download on github.

Following is a list of modules included in this repository.

Attention

In order to include these modules in your workflow, please:

  1. download the repository:

    wget https://github.com/bioinfo-core-BGU/neatseq-flow-modules/archive/master.zip
    
  2. Alternatively, clone the repository:

    git clone https://github.com/bioinfo-core-BGU/neatseq-flow-modules.git
    
  3. add the following line in the Global_params section of your workflow parameter file:

    module_path: /path/to/location/of/modules/repository
    

See more about definition of workflow parameter files in the documentation for the main NeatSeq-Flow package at http://neatseq-flow.readthedocs.io/en/latest/02.build_WF.html#parameter-file-definition.

Note

Some of the modules in this package are included in the main NeatSeq-Flow repository. These are indicated below with a *.

Important

NeatSeq-Flow enables users to program their own modules and workflows. You are encouraged to share your modules with the public by adding it to this repository. In order to do so, please fork the repository on github, upload your new module or workflow and open a pull request.

Modules

Indices and tables