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| | __ / _ \| _| | | / _ \ | '_ ` _ \ | '_ \
| |_\ \| __/| | | \__/\| (_) || | | | | || |_) |
\____/ \___|\_| \____/ \___/ |_| |_| |_|| .__/
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-- all your genes belong to us!
GeFComp is a Python script for comparing performance metrics of different gene finding tools. Given a number of [genome assemblies] ga-wiki in FASTA format, GeFComp executes each available tool on each of the genomes and evaluates Type I and Type II errors, also known as false positives and false negatives. Results are then summarised
Currently, GeFComp supports:
Python-only requirements can be installed via the usual pip
boilerplate, but to do the
evaluation you also have to make sure that the following tools are available in $PATH
:
$ pip install -r requirements.txt
Or, if you prefer Debian and system-wide installation:
# aptitude install python-biopython bwa
$ gefcomp.py config.py
$ ls *.csv
summary.csv