Results for "calculating"
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PATRISTICv1.0 is a java program that calculates patristic distances from large trees in a range of file formats and allows graphical and statistical interpretation of distance matrices calculated by other programs.2507 days ago
Seal: SEquence ALignment evaluation suite
...del rate. Applying alignment tools to the genome and the reads through a standardized interface. Parsing the output of the alignment tool and calculating the number of reads that were...2358 days ago
ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
...(i) building gene-based and supermatrix-based phylogenies using a single command, (ii) testing and visualizing evolutionary models, (iii) calculating distances between trees of di...2311 days ago
- %MM calculates whether a given gene sequence encodes amino acids using the most common codons possible, the least common codons possible, or (most typically) some combina...
2217 days ago
- d2Tools are the toolbox for counting the frequency of K-tuple from sequencing datasets and then calculating the pairwise dissimilarity matrix between samples with the d2-style...
2098 days ago
Referee: Genome assembly quality scores
...s that map to a site in an assembled genome to calculate a quality score for each position in the genome assembly. We accomplish this by first calculating genotype likelihoods for ever...2053 days ago
OrthoANI: An improved algorithm and software for calculating average nucleotide identity
OAT uses OrthoANI to measure the overall similarity between two genome sequences. ANI and OrthoANI are comparable algorithms: they share the same species demarcation cut-...2015 days ago
CoverM: Read coverage calculator for metagenomics
...applications. CoverM calculates coverage of genomes/MAGs coverm genome (help) or individual contigs coverm contig (help). Calculating coverage by read mapping, its...1145 days ago
- ..., assembly, identification and quantification. It contains various unique features such as well-designed lncRNAs annotation strategy, optimized calculating efficiency, diversified class...
1005 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....4 days ago
