build_index             Build index for mapping using Salmon
get_fastq               Download fastq files
get_metadata            Download metadata from GEO and SRA
get_srr                 Download SRA run files
process_geo_rnaseq      A complete pipeline to process GEO RNA-seq data
run_fastqc              QC report for each fastq files using FastQC
run_multiqc             Generate combined QC report for Salmon and
                        FastQC
run_salmon              Quantify transcript abundances using Salmon
run_tximport            Wrapper function to run tximport
trim_fastq              Trim fastq files using Trimmomatic
