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1. refresh-bio/FAMSA refresh-bio/FAMSA Public

   Algorithm for ultra-scale multiple protein sequence alignments: 3 million ABC transporters analyzed in 5 minutes and 18 GB of RAM.

   C++ 273 35

2. refresh-bio/kmer-db refresh-bio/kmer-db Public

   Fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, comparison): 16 million viral contigs analyzed in less than an hour.

   C++ 102 18

3. adaa-polsl/RuleKit adaa-polsl/RuleKit Public

   Comprehensive suite for rule-based learning

   Java 190 12

4. refresh-bio/colord refresh-bio/colord Public

   A versatile compressor of third generation sequencing reads.

   C++ 53 15

5. refresh-bio/PHIST refresh-bio/PHIST Public

   Phage-Host Interaction Search Tool

   C++ 33 2

6. refresh-bio/vclust refresh-bio/vclust Public

   Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes

   Python 111 5