KAT: a K-mer analysis toolkit to quality control NGS datasets and genome assemblies
KAT is a suite of tools that analyse jellyfish hashes or sequence files (fasta or fastq) using kme...y k-mers within specified coverage and GC tolerances. seq: Filters a sequence file based on...2038 days ago
ASAR: Advanced metagenomic Sequence Analysis in R
An interactive data analysis tool for selection, aggregation and visualization of metagenomic data is presented. Functional analysis with a SEED hierarchy and pathway diagram based on KEGG orthology based upo...2184 days ago
FastANI: fast alignment-free computation of whole-genome Average Nucleotide Identity (ANI)
FastANI is developed for fast alignment-free computation of whole-genome Average Nucleotid...e alignments and uses Mashmap as its MinHash based sequence...orthologous mappings and alignment identity estimates. Based on...2179 days ago
ARC: pipeline which facilitates iterative, reference guided de novo assemblies
ARC is a pipeline which facilitates iterative, reference guided de novo assemblies with...should assemble together. Reducing/removing reference bias as compared to mapping based app...2167 days ago
REVIGO: Reduced Visualize gene ontology
REViGO can take long lists of Gene Ontology terms and summarize them by removing redundant GO terms. The remaining terms can be visualized in semantic similarity-based sca...2162 days ago
FMLRC: a long-read error correction tool using the multi-string Burrows Wheeler Transform
FMLRC, or FM-index Long Read Corrector, is a tool for performing hybrid correction of long read se...quency k-mers in the implicit de Bruijn graph. In contrast to other de Bruijn graph based imp...2151 days ago
Hercules: a profile HMM-based hybrid error correction algorithm for long reads
Choosing whether to use second or third generation sequencing platforms can lead to trade-...short reads. Current approaches rely on various graph based alignmen...ned and developed Hercules, the first machine learning-based lon...2141 days ago
CoLoRMap: Correcting Long Reads by Mapping short reads
Second generation sequencing technologies paved the way to an exceptional increase in the number o...high-quality Illumina paired-end reads mapped onto the long reads. Our algorithm is based on...2141 days ago
CBS Comparative Microbial Genomics group - BioTools download page
he CMG-biotools system presents a stand-alone interface for comparative microbial genomics. The package is a customized operating system, based on...2139 days ago
Snakemake—a scalable bioinformatics workflow engine
Snakemake is a workflow engine that provides a readable Python-based workflow definition language and a powerful execution environment that scales from single-core workstations to compute clusters without modifying the workflow.2128 days ago