Results for "Clustering"
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CNIDARIA: fast, reference-free phylogenomic clustering
Motivation: Identification of biological specimens is a major requirement for a range of applications. Reference-free methods analyse unprocessed sequencing data without relying on prior knowledge, but these do not scale to arbitrarily large genomes and arbitrarily large phylogenetic distances. ...Tags: Bioinformatics, CNIDARIA, Fast, Reference-free, Phylogenomic, Clustering, NGS
2884 days ago
- RapClust is a tool for clustering contigs from de novo transcriptome assemblies. RapClust is designed to be run downstream of the Sailfish or Salmon tools for rapid transcript-level quantification. Specifically, RapClust relies on the fragment equivalence classe...
Tags: RapClust, Accurate, Lightweight, Clustering, de novo, Transcriptomes, Fragment, Equivalence, Classes
2044 days ago
MMseqs2.0: ultra fast and sensitive protein search and clustering suite
MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multiple cores and s...Tags: MMseqs2, ultra, fast, sensitive, protein, search, clustering, suite
2240 days ago
Rainbow: an integrated tool for efficient clustering and assembling RAD-seq reads
Rainbow is developed to provide an ultra-fast and memory-efficient solution to clustering and assembling short reads produced by RAD-seq. First, Rainbow clusters reads using a spaced seed method. Then, Rainbow implements a heterozygote calling like strategy to divide potential groups into haploty...Tags: Rainbow, ultra-fast, memory-efficient, solution, clustering, assembling, short, reads, RAD-seq
2029 days ago
SiLiX: implements an ultra-efficient algorithm for the clustering of homologous sequences
The software package SiLiX implements an ultra-efficient algorithm for the clustering of homologous sequences, based on single transitive links (single linkage) with alignment coverage constraints. SiLiX adopts a graph-theoretical framework to interpret similarity pairs as edges of a networ...Tags: SiLiX, ultra-efficient, algorithm, clustering, homologous, sequences, Bacteria
1975 days ago
MMseqs2: ultra fast and sensitive sequence search and clustering suite
MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multi...Tags: MMseqs2, ultra, fast, sensitive, sequence, search, clustering, suite
1207 days ago
MMseqs2: ultra fast and sensitive sequence search and clustering suite
MMseqs2 (Many-against-Many sequence searching) is a software suite to search and cluster huge protein and nucleotide sequence sets. MMseqs2 is open source GPL-licensed software implemented in C++ for Linux, MacOS, and (as beta version, via cygwin) Windows. The software is designed to run on multi...Tags: MMseqs2, ultra, fast, sensitive, sequence, search, clustering, suite, psiblast
946 days ago
