Epiviz: an interactive visualization tool for functional genomics data.
... visualizations. You can see a video tour here. https://bioconductor.org/packages/release/bioc/html/epivizr.html https://github.com/epiviz https://github.com/epiviz/epiviz2185 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 Nucleotide Identity (ANI). ANI is defined as mean nucleotide identity of orthologous ge...2181 days ago
Genome U-Plot: a whole genome visualization
...s. The main features of the Genome U-Plot are its layered layout, its high spatial resolution and its improved aesthetic qualities. https://github.com/gaitat/GenomeUPlot2181 days ago
Merqury: reference-free quality and phasing assessment for genome assemblies
...independently evaluating assembly quality without the need of a high quality reference. Merqury provides a set of tools for this purpose. https://github.com/marbl/meryl1487 days ago
Nanopolis: polish a genome assembly
...(see Nanopolish modules, below). Quickstart http://nanopolish.readthedocs.io/en/latest/quickstart_consensus.html Algorithms http://simpsonlab.github.io/2017/06/30/nanopolish-v0.7...2168 days ago
ARC: pipeline which facilitates iterative, reference guided de novo assemblies
...de novo assemble specific content and a set of semi-similar reference targets is available to initialize the assembly process. https://ibest.github.io/ARC/2168 days ago
nanofilt: Filtering and trimming of long read sequencing data
Filtering on quality and/or read length, and optional trimming after passing filters.Reads from stdin, writes to stdout. Intended to be used: directly after fastq extraction prior to mapping in a stream between extraction and mapping https://github.com/wdecoster/nanofilt2164 days ago
Indexcov: fast coverage quality control for whole-genome sequencing
...rge-scale chromosomal anomalies, recognize potential batch effects, and infer the sex of a sample. Indexcov is available at https://github.com/brentp/goleft under...2134 days ago
2157 days ago
AlignQC: A tool for assessing an alignment, and generating reports that are easy to share
...and outputs a web browser compatible xhtml to visualize/share/store/extract analysis results. https://f1000research.com/articles/6-100/ https://github.com/jason-weirather/AlignQC...2156 days ago