Code for working with Methanobacteria genomes
Currently, a .txt file contains the commands I used for trimming and alignment of new MySeq reads to the genomes from NCBI, and a .sh file is a shell (bash) script abstracting the same commands.
Actually, I created it mainly to learn how to use named arguments in bash scripts :)
spades-align-with-scaffolds.sh script contains commands used for a de-novo assembly with spades (with the assistance of the preexisted scaffolds).
bla-bla