Format conversion

SFF to FASTQ

Use SRR013472.sff as an example

amo sff2fastq \
-threads 1 \
-hlog \
-jobname [JOB_NAME] \
-sff SRR013472.sff \
-output [OUTPUT_DIRECTORY]

DNA to amino acid sequence

amo atgc_dna2aa \
-threads 1 \
-hlog \
-jobname [JOB_NAME] \
-fastx <INPUT_SEQUENCE> \ # e.g., 2019-nCoV_WH04.completeGenome.fa
-output [OUTPUT_DIRECTORY]