references.md

References

1. python:

• Anaconda (Anaconda Software Distribution, https://anaconda.com)

2. trimgalore:

• trimgalore https://github.com/FelixKrueger/TrimGalore

3. cutadapt:

• Marcel, M. 2011. Cutadapt removes adapter sequences from high-throughput sequencing reads. EMBnet.journal 17(1):10-12. doi:10.14806/ej.17.1.200

4. bwa:

• Li H., and R. Durbin. 2009. Fast and accurate short read alignment with Burrows-Wheeler Transform. Bioinformatics 25: 1754-60. doi:10.1093/bioinformatics/btp324

5. samtools: