mastorkia/bulkRNAseq_COVID-Uganda

# bulk-RNA-seq scripts These scripts were used for the analysis of 100 bulk-RNA-seq samples studied in the "COVID-19 immune signatures in Uganda persist in HIV co-infection and diverge by pandemic phase" paper PMID:38368384. ### Pipeline steps * Adaptor removal and quality trimming using Trimmomatic. * Reads mapping and gene count by STAR. * Filtering, normalization and differential expression steps based on DESeq2 package.