QuasiModo - Quasispecies Metric Determination on Omics
...benchmarking study. In this study we evaluated genome assemblers and variant callers on 10 in vitro genera...ndance ratios. This tool can also be used to evaluate assemblies and variant calling results on other similar data...1057 days ago
Calling variants in non-diploid systems
The main challenge associated with non-diploid variant calling is the difficulty in distinguishing between the seq...uencing noise (abundant in all NGS platforms) and true low frequency variants. Some of the early attempts...1057 days ago
883 days ago
Merfin: improved variant filtering, assembly evaluation and polishing via k-mer validation
Merfin, a k-mer based variant-filtering algorithm for improved accuracy in genotypi...d genome assembly polishing. Merfin evaluates each variant based on the expected k-...pendently of the quality of the read alignment and variant...776 days ago
Minda: a tool for evaluating structural variant (SV) callers
Minda is a tool for evaluating structural variant (SV) callers that standardizes VCF records for compatibility with both germline and somatic SV callers, benchmarks against a single VCF input file, or benchmarks against an ensemble call set created from multiple VCF input files.48 days ago