1567 days ago
Juicebox: Visualization and analysis software for Hi-C data
Juicebox is visualization software for Hi-C data. This distribution includes the source code for Juicebox, Juicer Too...1563 days ago
1555 days ago
shinyChromosome:a GUI for the interactive creation of non-circular whole genome diagrams
shinyChromosome is a graphical user interface for interactive creation of non-circular..., and https://yimingyu.shinyapps.io/shinyChromosome for online use. The source code and manual of shinyChromosome...1555 days ago
DeepHiC: A Generative Adversarial Network for Enhancing Hi-C Data Resolution
DeepHiC is a GAN-based model for enhancing Hi-C data resolution. We developed this ser...ps of clicks. Ab initio training could be performed according to our published code. We provided trained models f...1552 days ago
chromosight: Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
Python package to detect chromatin loops (and other patterns) in Hi-C contact maps. Stable version with pip: pip3 install --user chromosight Stable version with...1532 days ago
tinycov: standalone command line utility written in python to plot coverage from a BAM file
Tinycov is a small standalone command line utility written in python to plot the coverage of a BAM file quickly. This software was inspired by Matt Edwards' genom...1532 days ago
Filtlong: quality filtering tool for long reads
Filtlong is a tool for filtering long reads by quality. It can take a set of long reads and produce a smaller, better subset. It uses both read length (longer is bette...1481 days ago
medaka: Sequence correction provided by ONT Research
medaka is a tool to create a consensus sequence from nanopore sequencing data. This task is performed using neural networks applied from a pileup of individual se...1475 days ago
gggenes: a ggplot2 extension for drawing gene arrow maps.
Install the stable version of gggenes from CRAN: install.packages("gggenes") If you want the development version, install it from GitHub: devtools::install_github("wilkox/gggenes") More at https://github.com/wilkox/gggenes1461 days ago