Mobyle: a new full web bioinformatics framework
Mobyle, to provide a flexible and usable Web environment for defining and running bioinformat...allow the user to reproduce analyses and to combine tools using a hierarchical typing system....2350 days ago
Frontend: Perl Web framework documentation - Andrej Sali Lab
The frontend is a set of Perl classes that displays the web interface, allowing a user to up...t files, start a job, display a list of all jobs in the system,...CGI scripts that are set up automatically by the build system....2348 days ago
karyoploteR: plot whole genomes with arbitrary data
karyoploteR is an R package to create karyoplots, that is, representations of whole genomes with arbitrary data plotted on them. It is inspired by the R base graphics system a...1991 days ago
MUMmer4: A fast and versatile genome alignment system
MUMmer4, a substantially improved version of MUMmer that addresses genome size constraints by changing the 32-bit suffix tree data structure at the core of MUMmer to a 4...2323 days ago
GenomeTools: The versatile open source genome analysis software
The GenomeTools genome analysis system is a free collection of bioinformatics tools (in the realm of genome informatics) combined into a single b...2319 days ago
Genome assembly stats plotting
A de novo genome assembly can be summarised b y a number of metrics, inclu...direct comparison of exact values between assemblies, the limitations of this approach lie in the necessary omission...2298 days ago
Mesquite: A modular system for evolutionary analysis
Mesquite is modular, extendible software for evolutionary biology, designed to help biologists organize and analyze comparative data about organisms. Its emphasis is on phylogenetic a...2285 days ago
GMOL: An Interactive Tool for 3D Genome Structure Visualization
GMOL was developed based upon our multi-scale approach that allows a user to scale between six separate levels within the genome. With GMOL, a user can choose any unit at any scale and scale it up or down to visualize its structure and retrieve corresponding genome sequences.2277 days ago
repeat-aware: Repeat aware scaffolding evaluation framework by Igor Mandric
Genome scaffolding is a classical challenging problem in bioinformatics. It refers to joining assembly contigs into...repeats. The previous standard for evaluation (Hunt et al., Genome Biology,...2277 days ago
MITObim - mitochondrial baiting and iterative mapping
This document contains instructions on how to use the MITObim pipeline described in Hahn et a...a that comes with this Repo, just to make sure everything is running smoothly on your system....2229 days ago