LoFreq-Star

We will soon release a beta of a rewritten and greatly extended version of LoFreq called LoFreq-Star. Amongst many other new features, LoFreq-Star is able to call low-frequency indels and features a highly sensitive and thoroughly benchmarked somatic SNV calling extension.

Version 0.6.1 release

This is a minor release

• Anomalous reads (where a mate-pair is not mapped) can now taken into consideration with the new option -A, –anomalous-pairs-allowed (analogous to samtools mpileup -A)
• Overwriting of output files can be forced with the –force option

Fixed SNV frequencies in the DENV2 simulation data

The frequencies listed in the snp-file for denv2-simulation.tgz were found to mixed up. The just uploaded package contains a corrected file and a corresponding vcf-file.