2589 days ago
A Post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
...le to close gaps left open by the assembler in a draft genome, even when using the same data sets as used by the original assembler. iCORN, that enables errors in the consensus seque...2561 days ago
Genomicus: genome browser that enables users to navigate in genomes in several dimensions
Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronological...2371 days ago
poRe: an R package for the visualization and analysis of nanopore sequencing data
...community will need to design and build a suite of tools specifically for MinION data. Results: Here we present poRe, a package for R that enables users to manipulate, organize...2366 days ago
Dot, an interactive viewer for genome-genome comparison
...or aligning genome assemblies. A quick script called DotPrep.py converts the delta file to a more streamlined coordinates file with an index that enables Dot to read in more alignment...2314 days ago
MMseqs2.0: ultra fast and sensitive protein search and clustering suite
...de is available as Github Wiki or as PDF file (Thanks to pandoc!) Please cite: Steinegger M and Soeding J. MMseqs2 enables sensitive protein sequence se...2247 days ago
2219 days ago
mmgenome: Tools for extracting individual genomes from metagneomes
The mmgenome toolbox enables reproducible extraction of individual genomes from metagenomes. It builds on the multi-metagenome concept, but wraps most of the process of...2107 days ago
MimicrEE2: Genome-wide forward simulations of Evolve and Resequencing studies
MimicrEE2, a multi-threaded Java program for genome-wide forward simulations of evolving populations. MimicrEE2 enables the convenient usage of available genomic resources, supports b...2057 days ago
UpSetR: An R Package for the Visualization of Intersecting Sets and their Properties
.... The UpSet technique visualizes set intersections in a matrix layout and introduces aggregates based on groupings and queries. The matrix layout enables the effective representation...1935 days ago