v1.0.2

transrate v1.0.2

This is is a patch release of transrate v1, including some small changes to help messages and documentation, as well as some new features requested by reviewers.

Please report any bugs on the issue tracker. Documentation for this release is on the transrate website: http://hibberdlab.com/transrate/.

Installation

Simple install

This is the simplest option if you just want to use transrate from the command-line...

Download one of the binaries linked below, unpack it, and add it to your PATH.

• Linux 64 bit: transrate-1.0.2-linux-x86_64.tar.gz
• OSX: transrate-1.0.2-osx.tar.gz

Download the example data so you can test your installation has worked.

Advanced/developer install

This is the option you need if you want to develop code that uses transrate as a library...

$ gem install transrate
$ transrate --install-deps

Changes

• new feature: transrate outputs one file per contig metric (see http://hibberdlab.com/transrate/metrics.html) containing the contigs that performed poorly on that metric alone. These can potentially be used or fixed by the user. Requested by an anonymous reviewer.
• new feature: an expression-weighted assembly score as an alternative to the transrate score. Requested by an anonymous reviewer.
• fix documentation issues #179, #164 and #165 (thanks @macmanes and @ctb)

For changelog history before v1.0.0, please see the release notes for v1.0.0 final.