Release of GenPipes 6.1.0

[Mareike Janiak]

A new release of GenPipes, 6.1.0 is now available.

 

What's new? 

==========

This is a medium release : 

* General

     - a new tool called the GenPipes wizard is now available. Perfect for those new to GenPipes, the wizard is an interactive tool that helps users to choose the appropriate pipeline for their data and even builds the correct GenPipes command. Try it out by running:

genpipes tools wizard

     - cluster-specific config files have been updated to reflect the new clusters available from the Digital Research Alliance of Canada

* AmpliconSeq

     - fixed a small bug that improperly set trimming parameters in some cases

* ChIPSeq

     - metrics changes made in v5.1.0 that were accidentally rolled back in v6.0.0 have been added back to the chipseq protocol

* LongRead DNASeq

     - a new protocol for analyzing matched tumor-normal samples called nanopore_paired_somatic is now available

     - the nanopore protocol of this pipeline has been updated substantially with additional variant calling, structural variant calling, and phased results

* RNASeq

     - outputs for variant calling steps are now organized in their own directory, instead of being added to the alignment directory as before

Where to find it?

============ 

* The source code for this version is in bitbucket : 

https://github.com/c3g/GenPipes/releases/download/6.1.0/c3g_genpipes-6.1.0.tar.gz

* GenPipes is distributed as a package via pypi:

https://pypi.org/project/c3g-genpipes/

* The module genpipes/6.1.0 is installed on Abacus (MGC), Rorqual, Nibi, Fir and Narval Alliance clusters.

 

* The source code is on GitHub :

https://github.com/c3g/GenPipes 

 

* For more documentation, please refer to :

https://genpipes.readthedocs.io/

Where is the detailed ChangeLog? 

========================== 

A ChangeLog (CHANGELOG.md) is available in the archive as well as in the repository.

 

Since we use git, there are many ways to get the details in many formats. 

The CHANGELOG.md is an overview of notable changes generated by auto-changelog:

https://github.com/CookPete/auto-changelog

--

Mareike Janiak

Bioinformatics Specialist - Technical Development

Canadian Centre for Computational Genomics (C3G)