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fmalmeida/bacannot v2.0

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@fmalmeida fmalmeida released this 09 Sep 19:17
· 670 commits to master since this release
v2.0
aca543b

Changes

This release marks the change from nextflow DSL 1 to DSL 2. Also it has a lot of minor changes such as database headers configuration, parameters syntax changes and HTML reports updates in order to understand these changes.

The main workflow does not have huge alterations, the only ones are:

  • Output prefix is set based on input filename
  • KEGGDecoder has been added
  • ARGminer has been added
  • Scan of full-length ICEs has been added
  • SQLdb has been removed in order to integrate mongoDB (in next releases)
  • Roary has been removed (we will create a different workflow in order to execute the pangenome analysis separately)
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