v10.4_noRSSfiles

RSSerror.* files were removed

Control-FREEC v10.4

Can read vcf.gz to create minipileups (before only .bed, bed.gz and vcf were accepted)

FREEC v10.3

_info.txt file has been added to the output that summarizes FREEC output and options:

• ploidy
• contamination
• version of FREEC
• etc. See Manual

FREEC v10.2

Some cleaning of the code

FREEC v10.1

• GC-content file gets its prefix;
• reading of pileup files is corrected for exome-seq data

Control-FREEC v9.9 - subclone detection now works

Suggested use for subclone detection:
minimalSubclonePresence = 0.2
This will identify possible subclones present in >20% of cell population

Also, one can use sambamba for bam reading and minipileup creation.

FREEC v9.8

There was a important bug for whole genome sequencing analysis in several previous versions. This bug caused empty files with the latest gcc compiler or resulted in segmentation faults. It is now corrected.

v9.8 - without dubugging info printed

v9.8b

removed CHECK lines

FREEC v9.7b - changes in Makefile

Version v9.7 did no compile as the Makefile was not updated. Now it is fixed.

FREEC v9.7

Support for minipileup creation for WGS data from .BAM files

Please remove RSSerror.cpp and RSSerror.h before compiling.