simNGS and simLibrary – Software for Simulating Next-Gen Sequencing Data
...fasta format sequences and a file describing the covariance of noise between bases and cycles observed in an actual run of the machine, randomly generates noisy intensities representin...2377 days ago
NanoSim: nanopore sequence read simulator based on statistical characterization.
...nanopore sequencing technology. The first step of NanoSim is read characterization, which provides a comprehensive alignment-based analysis and generates a set of read profiles servin...2358 days ago
Delta: a new Web-based 3D genome visualization and analysis platform
...bsp;takes Hi-C or ChIA-PET contact matrix as input and predicts the topologically associating domains and chromatin loops in the genome. It then generates a physical 3D model which rep...2355 days ago
AliTV—interactive visualization of whole genome comparisons
AliTV, which provides interactive visualization of whole genome alignments. AliTV reads multiple whole genome alignments or automatically generates alignments from the provided data. O...2334 days ago
PhyloGrapher - Graph Visualization Tool
...e and study evolutionary relationships within families of homologous genes or proteins (elements). PhyloGrapher is a drawing tool that generates custom graphs for a given set...2278 days ago
RestrictionDigest: A powerful Perl module for simulating genomic restriction digests
...It can simulate single-enzyme digestion, double-enzyme digestion and size selection process. It can also analyze multiple genomes at one run and generates concise comparison of enzyme(...2181 days ago
NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data
...putational pipeline to perform SV calling from low coverage long-read sequencing data. NextSV integrates three aligners and three SV callers and generates two integrated call sets (sen...2126 days ago
KOBAS: a web server for gene/protein functional annotation and functional gene set enrichment
...odule, it accepts gene list as input, including IDs or sequences, and generates annotations for each gene bas...it can accept either gene list or gene expression data as input, and generates enriched gene sets, correspon...2052 days ago
Scribl : HTML5 canvas genomics graphic library
Scribl is a javascript, Canvas-based graphics library that easily generates biological visuals of genomic regions, alignments, and assembly data. Scribl can also be used in conventional offline pipelines, since everything needed to generate charts can be contained in a single html file.2046 days ago
UpSetR: An R Package for the Visualization of Intersecting Sets and their Properties
UpSetR generates static UpSet plots. The UpSet technique visualizes set intersections in a matrix layout and introduces aggregates based on groupings and queries....1951 days ago