Kraken: ultrafast metagenomic sequence classification using exact alignments
Kraken is an ultrafast and highly accurate program for assigning taxonomic labels to metagenomic DNA sequences. Previous programs designed for this task have been relatively slow and computationally expensive, forcing researchers to use faster abundance estimation programs, which only classify sm...Tags: Bioinformatics, Kraken, Metagenomic, Sequence, Classification, Alignments, NGS
2860 days ago
Tags: Bioinformatics, Kaiju, Metagenomic, Sequence, Classification, Alignments, NGS
2860 days ago
Tags: Bioinformatics, Analysis, NGS, PHYMMBL, Genome, MetaGenome, Classification, Reads
2755 days ago
Tags: Pango, Lineage, Analysis, Output, Classification, SARS-CoV2
893 days ago
Tags: Lineage, Pango, Classification, Covid, SARS-CoV2
864 days ago
RNAcon: web-server for the prediction and classification of non-coding RNAs
RNAcon is a web-server for the prediction and classification of non-coding RNAs. It uses SVM-based model for the discrimination between coding and ncRNAs and RandomForest-based prediction model for the classification of ncRNAs into different classes. The structural information based graph propert...Tags: RNAcon, web-server, prediction, classification, non-coding, RNAs
2475 days ago
Tags: TACOA, Taxonomic, classification, environmental, genomic, fragments, KNN, Contamination
2173 days ago
PureCN: copy number calling and SNV classification using targeted short read sequencing
This package estimates tumor purity, copy number, and loss of heterozygosity (LOH), and classifies single nucleotide variants (SNVs) by somatic status and clonality. PureCN is designed for targeted short read sequencing data, integrates well with standard somatic variant detection and copy number...Tags: PureCN, copy, number, calling, SNV, classification, targeted, short, read, sequencing
2087 days ago
CLARK: Fast, accurate and versatile sequence classification system
CLARK, a method based on a supervised sequence classification using discriminative k-mers. Considering two distinct specific classification problems (see the article for details), namely (1) the taxonomic classification of metagenomic reads to known bacterial genomes, and (2) the assignment ...Tags: CLARK, Fast, accurate, versatile, sequence, classification, system, bacteria
1532 days ago
CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
Contig Annotation Tool (CAT) and Bin Annotation Tool (BAT) are pipelines for the taxonomic classification of long DNA sequences and metagenome assembled genomes (MAGs/bins) of both known and (highly) unknown microorganisms, as generated by contemporary metagenomics studies. The core algorithm of ...Tags: CAT/BAT, tool, taxonomic, classification, contigs, metagenome, assembled, genomes, MAGs
1439 days ago