FREEC v9.6

Several bugs are fixed:

• No more missed columns in the _CNVs file
• Default correction for the GC-content bias in Whole Exome Sequencing datasets

FREEC v9.5

Now forceGCcontentNormalization=1 is the default for whole exome seq data. You will get much smoother profiles using this option (set window=0 to count reads per exon; then forceGCcontentNormalization=1 will be set automatically).

FREEC v9.4

Very bad bug about the shift of all BAF values introduced in v9.0 was fixed!
NoisyData option was improved
Evaluation of normal contamination was improved

FREEC v9.3

Can read .vcf file and .gz files with SNP information. Can run on exome-seq where exons are missing on chrM etc with BAF option.

v9.2

Can use fasta.fai files as input to chrLen.
Does not produce an error on exome-seq data not including chrM, etc.

FREEC v9.2

FREEC 9.2 including scripts