158 days ago
pipesnake: bioinformatics best-practice analysis pipeline for phylogenomic reconstruction
ausarg/pipesnake is a bioinformatics best-practice analysis pipeline for phylogenomic reconstruction starting from short-read 'second-generation' sequencing data. The pipeline is built...138 days ago
ExRec: Exclusion of Recombined DNA
ExRec (Exclusion of Recombined DNA) is a Python pipeline that implements the four-gamete test to filter out recombined DNA sites from up to thousands of DNA sequence loci...102 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.99 days ago
A web-based tool for sequence alignment statistics and innovative visualization
AlignStatPlot, a new R package and online tool that is well-documented and easy-to usefo...analysis. This tool performs both traditional and cutting-edge analy-ses on sequencing data and generates new visual...95 days ago
MIKE: an ultrafast, assembly-, and alignment-free approach for phylogenetic tree construction
MIKE (MinHash-based k-mer algorithm). This algorithm is designed for the swift calculation of the Jaccard coefficient directly from raw sequencing reads and enables the constru...91 days ago
MetaGraph: Ultra Scalable Framework for DNA Search, Alignment, Assembly
The MetaGraph framework is designed to work with a wide range of input data sets, indexing from a few samples up to the contents of entire archives with hundreds of...30 days ago
Bactopia: a flexible pipeline for complete analysis of bacterial genomes
Bactopia is a flexible pipeline for complete analysis of bacterial genomes. The goal of...atasets as well as your own datasets to further enhance the analysis of your sequencing. Bactopia only uses software...30 days ago
P10K: The Protist 10,000 Genomes
The Protist 10,000 Genomes (P10K) Project aims to decipher the genome sequences and cons...om diverse habitats, and the genome information was acquired through de novo sequencing, genome re-annotation, and in...2 days ago