NEWS

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Rqc 1.12

BUG FIXES

• Fix bug when generating report on Windows system
• Using default graphic device for report generation

Rqc 1.10

BUG FIXES

• The rqcQA function always returns list

Rqc 1.6

NEW FEATURES

• Support to paired-end reads added

USER VISIBLE CHANGES

• Per file heatmap plot improved

Rqc 1.4

NEW FEATURES

• Custom template support added
• Read frequency result and plot (rqcReadFrequencyPlot) added
• Per file top represented reads added
• Top representated reads added
• Per file heatmap plot (rqcFileHeatmap) added
• checkpoint function added (experimental)

USER VISIBLE CHANGES

• BPPARAM argument replaced by workers argument
• File information table added to default report template
• Function rqcReadWidthPlot, y-axis changed to proportion (%)
• Almost all plots use colorblid scheme

Rqc 1.2

NEW FEATURES

• Study design metadata system (group ID, strand, etc) added
• Statistics for trimming step added
• Per sample mean quality box plot added
• Per cycle mean quality Principal Component Analysis (PCA) plot added
• Overrepresented sequencing reads plot added

USER VISIBLE CHANGES

• RqcResultSet class stores data as frequency tables
• BPPARAM argument added to rqc and rqcQA functions

BUG FIXES

• Memory usage improved
• Input file validation system
• Rqc does not depend on X11 to generate plots
• Rqc's reporter can generate plots for more than 10 files
• Fixed bug related with reshape2 dependency
• Fixed bug related with table function