Secondary Analyses are datatype-specific. HTS-flow supports:

• Expression Quantification.
• Differential Genes Expression (DEG calling).
• Peak Calling
• Footprint Calling.
• Methylation calling.
• Analysis of 4sU-seq and RNA-seq time-course data (INSPEcT).

The output of a secondary analysis is saved in RDS format, which can be loaded within R with the function readRDS: results=readRDS(‘path_to_your_result_file’) . Refer to https://stat.ethz.ch/R-manual/R-devel/library/base/html/readRDS.html for more information about this function.