sim3C: Read-pair simulation of 3C-based sequencing methodologies (HiC, Meta3C, DNase-HiC)
Required python modules biopython intervaltree numpy scipy tqdm PyYAML2059 days ago
NovoGraph: building whole genome graphs from long-read-based de novo assemblies
NovoGraph: building whole genome graphs from long-read-based de novo assemblies An algorithmically novel approach to construct a genome graph representation of long-read-based&nbs...2056 days ago
visNetwork: an R package for network visualization, using vis.js javascript library
visNetwork is an R package for network visualization, using vis.js javascript lib...lcome on github : https://github.com/datastorm-open/visNetwork. Features Based on&...2001 days ago
Genome sequence-based (sub-)species delineation.
The GGDC web service reports digital DDH for a universal and accurate delineation of prokaryotic (sub-)species without inheriting the pitfalls of classic DDH, and also c...2030 days ago
genoPlotR - plot gene and genome maps project!
genoPlotR is a R package to produce reproducible, publication-grade graphics of gene and genome ma...Add annotations to all the lines Create smart, automatic annotations for genomes, based on...2030 days ago
SiLiX: implements an ultra-efficient algorithm for the clustering of homologous sequences
The software package SiLiX implements an ultra-efficient algorithm for...the clustering of homologous sequences, based on single transitive links (s...a network. A very efficient algorithm, based on the&n...nts. A parallel version of SiLiX, based on...2030 days ago
EGAD: Ultra-fast functional analysis of gene networks
With the EGAD (Extending ‘Guilt-by-Association’ by Degree) package, we present a series of highly efficient tools to calculate functional properties in networks based on...2028 days ago
2025 days ago
ALLHiC: Phasing and scaffolding polyploid genomes based on Hi-C data
The major problem of scaffolding polyploid genome is that Hi-C si...etween allelic haplotypes and any existing stat of art Hi-C scaffolding pr...pes together. To solve the problem, we developed a new Hi-C scaffoldi...2021 days ago
Versatile genome assembly evaluation with QUAST-LG
QUAST-LG is an extension of QUAST intended for evaluating large-scale genome assemblies...igner (minimap2) and the refactoring of alignment analyzing modules New k-mer-based com...2020 days ago