451 days ago
Orthoflow: workflow for phylogenetic inference of genome-scale datasets of protein-coding genes
...f input sources including annotated contigs in Genbank format and FASTA files containing CDSs. It uses seve...e art inference methods for orthology inference, either based on HMM profiles or de novo inference of ortho...131 days ago
ExRec: Exclusion of Recombined DNA
...andalone applications: the first two convert folders of NEXUS or PHYLIP files into the standard input file...nvert the recombination-filtered data into single-locus NEXUS or PHYLIP files. The ExRec package can thus f...96 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.92 days ago
Panacus : A Counting Tool for Pangenome Graphs
panacus is a tool for calculating statistics for GFA files. It supports GFA files with P and W lines, but requires that the graph is blunt, i.e., nodes do...17 days ago