Release Covigator NGS pipeline v0.3.0

Major changes

• Add read trimming with fastp
• Output QC results in JSON format
• Integrate 4 variants callers: BCFtools, iVar, GATK and LoFreq
• Include soft filtering of variants based on VAF for all variants from LoFreq and for indels from BCFtools
• Integrate SnpEff 5.0 for the variant annotation
• Parametrize some quality thresholds

Covigator NGS pipeline v0.2.0 BETA

First pre-release integrating alignment, mark duplicates, realignment around indels, variant calling with samtools, variant normalization and variant annotations with bcftools csq.