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ggcat
Compacted and colored de Bruijn graph construction and queryingGraphChainer
An accurate aligner of long reads to a variation graph, based on co-linear chainingSBWT
Code for the paper Succinct k-mer Set Representations Using Subset Rank Queries on the Spectral Burrows-Wheeler Transform (SBWT)emerald
EMERALD calculates safety-windows by exploring the suboptimal alignment spacematchtigs
Minimum plain text representation of kmer setsMFD-ILP
Fast and exact ILP-based solvers for the Minimum Flow Decomposition problem, and variants of it.metaflow
MetaFlow is a program for community profiling of a metagenomic sampleVOMM
Space-efficient variable-order Markov modelsmfd-safety
emerald-analysis
Introduction-to-Applied-Bioinformatics
Genome assembly - From theory to practice (and back)practical-omnitigs
A repository to conduct experiments with omnitig-related models for genome assembly.PerformanceMPC
RobustFlowDecomposition
Flow Decomposition Under Uncertaintyanchors-in-chaining
panvc-founders
Instructions and examples for using PanVC with founder sequencesoptimized-fd
bwtCluster
Space-efficient clustering for metagenomic readsfounderblockgraphs
Constructs segment repeat-free founder block graphs from multiple sequence alignmentspanvc3-experiments
Experiments for evaluating PanVC 3Love Open Source and this site? Check out how you can help us