- Renamed parse_contigs to group_references to better name functionality
- group_references now supports bam files
- Version bump. Starting here we will employ semantic versioning
- Added version script to get version from project
- Started project over to setup for Continuous Integration testing
- Added rename_fasta that can rename fasta sequence identifiers based on a input rename file
- Added travis, coveralls, readthedocs
- Added amos file parser that is specific to Ray assembler amos format
- Added format functionality for amos classes such that it is easy to convert to different formats
- Added amos2fastq to pull sequences out of AMOS files organized by their contigs.
- Added vcfcat.py, a commandline app for filtering and comparing vcf files.
- Completed documentation for vcfcat
- Added beast_checkpoint script and documentation
- Added beast_wrapper script that prints estimated time column in beast output
- Added beast_est_time script that allows you to easily get estimated time left from already running beast run