Results for "abundance"
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Kraken: ultrafast metagenomic sequence classification using exact alignments
...slow and computationally expensive, forcing researchers to use faster abundance estimation programs, which on...minute, 909 times faster than Megablast and 11 times faster than the abundance estimation program MetaPhlAn....2871 days ago
- ...l Minia command line looks like: ./minia -in reads.fa -kmer-size 31 -abundance-min 3 -out output_prefix Typ...KmerGenie can be used to determine the best k-mer size, minimum abundance of correct k-mers, and genome...
2708 days ago
- ...ctions. Here we developed an automated metagenome binning software, called MetaBAT, which integrates empirical probabilistic distances of genome abundance and tetranucleotide frequency...
2620 days ago
INC-Seq: accurate single molecule reads using nanopore sequencing
INC-Seq reads enabled accurate species-level classification, identification of species at 0.1 % abundance and robust quantification of relative abundances, providing a cheap and effective approach for pathogen detection and microbiome profiling on the MinION system.2353 days ago
- ...statistical models for ab initio and evidence-guided prediction of genes RNA-seq and transcriptomics &mdash transcript assembly, abundance estimation and differential e...
2352 days ago
Kevler: Reference-free variant discovery in large eukaryotic genomes
...come to kevlar, software for predicting de novo genetic variants without mapping reads to a reference genome! kevlar's k-mer abundance based method calls single nuc...1562 days ago
- ...he accuracy of nucleotide base quality of genome assemblies. Briefly, abundance of k-mers are quantified for...mparison of the two values results in a single value per k-mer, K-mer Abundance Difference (KAD), which indic...
1419 days ago
mixtureS: a novel tool for bacterial strain reconstruction from reads
...ir variations. Tested on 243 simulated datasets and 195 experimental datasets, mixtureS reliably identified the strains, their numbers and their abundance. Compared with three tools, m...1356 days ago
CoverM: Read coverage calculator for metagenomics
CoverM aims to be a configurable, easy to use and fast DNA read coverage and relative abundance calculator focused on metagenomics applications. CoverM calculates coverage of genomes/...1104 days ago
QuasiModo - Quasispecies Metric Determination on Omics
...ome assemblers and variant callers on 10 in vitro generated, mixed strain HCMV sequence samples, each consisting of two lab strains in different abundance ratios. This tool can also be...1046 days ago
