BGISEQ-500 paired end sequencing of SAMD00804153
Due to the variability in sample quality and species, the efficiency of ribosomal removal methods may be inconsistent, and ribosomal contamination can impact subsequent analyses. Therefore, we used the short-read mapping software SOAP to map clean reads to the ribosomal database, allowing up to five mismatches, to remove reads mapped to the ribosomal database.  "Dirty" raw reads contain adapters, high contents of N bases, or low-quality reads, and must be removed before data analysis. The filtering steps are as follows:  1. Remove reads containing adapters. 2. Remove reads with more than 10% N bases. 3. Remove low-quality reads (defined as reads with over 50% low-quality bases, where low-quality bases have a sequencing quality score of 10 or less). 4. Remove duplicate reads.