Rik
Rik
Right now paths are created using `/` to join and split paths - this makes the library not compatible with node `fs` on Windows. If all the `/` path construction...
http://www.genomebiology.com/2015/16/1/30 https://sourceforge.net/projects/rnaseqassembly
Users may want to repeat the optimisation multiple times and take the average, or use vote-counting to choose candidate assemblies.
- Shared `Logger` instance - log at the appropriate level instead of `puts`ing - allow user to set loglevel as a commandline argument
In this strategy we partition the reads, and rather than sampling the partitions we optimise the assembly of each partition separately. Large partitions could be sampled down or diginormed.
When run with a small number of reads most assemblers have some combination of settings that is impossible, or which will produce an empty output file or no file at...
We need user docs in the form of a website. Developer docs can be generated from the source using rdoc.
Implement the same as in transrate. Relevant code: - https://github.com/Blahah/transrate/blob/master/bin/transrate#L13-L28 - https://github.com/Blahah/transrate/blob/master/bin/transrate#L80-L81 - https://github.com/Blahah/transrate/blob/master/bin/transrate#L164-L167 - https://github.com/Blahah/transrate/blob/master/lib/transrate.rb#L15-L25