MAVEQC version 0.2.6

• update README and upgrade version
• check if all the pass are false before pass_check
• correct pass of gini coeff
• minor fixes

MAVEQC version 0.2.5

• minor fix date and add the straight line in the report
• add the new sample meta table in the report
• add the slot of sample meta info in the classes
• add the function processing sample meta info

MAVEQC version 0.2.4

• update descriptions in the final report
• add methods and glossary in the final report

MAVEQC version 0.2.3

• removing some warnings
• fix the order in the LFC table
• add dendextend dependency
• update namespace
• allow adapt5 & adapt3 to be empty in sample sheet
• check ref_time_point in sample sheet
• change error to warning for ref_seq and pam_seq
• add warning message in the qc_report
• add boxplot to coverage table in the qc_report

MAVEQC version 0.2.2

• add function to calculate LFC using library independent counts
• improve beeswarm plot
• add median library coverage
• correct read length calculation
• add function to read symbolic link rather than real file path
• add user defined threshold for LFC plotting in the configure file
• add stat table for LFC plotting
• add function to create coldata for DESeq from sample sheet

MAVEQC version 0.2.1

• add final Sample QC results into markdown report
• improve configure file
• update SGE classes
• update Sample QC classes and functions
• update output functions

MAVEQC version 0.2.0

• improve data structure of kmean clustering
• improve data structure for processing
• add function to write out failed variants
• add clustering tree in the report
• add new slots to store clustering results and PCA results
• add QC2 processing and plotting functions
• add QC2 output files and improve report
• add Pass/Fail function to check clustering and PCA
• minor fixes in the plots

MAVEQC version 0.1.1

• add searching and filtering in the table of markdown report
• free x axis in the position coverage plot
• using vroom to speed up reading files
• using data.table to speed up ingestion process

MAVEQC version 0.1.0

Initial release