Bug fix

• Bug Fix in size-factor normalization

Minor improvements

• conduct STARS analysis based on fold-change instead of counts
• print sample names for replication correlation analysis in output log

New input format avoiding file renaming

• filename input via Excel sheet
• minor bug fixes

new version with more diagnostic plots and more analysis options

• plots for z-Scores and p-value distributions
• option to save figures as vector graphics
• option to define a minimal count cutoff
• improved figure layout and colors
• more consistent output folder structure

new version supporting size-factor normalization

• added the size-factor method (DESeq, MaGeCK) as an option for read count normalization

v1.1: major updates, including Excel support and higher RAM efficiency

• data input via Excel sheet (no more file renaming required)
• significant improvements in alignment and read counting making the program much more RAM efficient
• supports a single control replicate (no p-values can be computed in this case)
• option to generate .xlsx for the result spreadsheets instead of .tsv
• accepts both .tsv and .csv library spreadsheets
• includes a read count barchart
• all plots are now .png
• if alignment and QC folder are already present for a sample, the alignment for that sample is skipped (simplifies re-runs)
• all output is saved in a logfile