CSBFinder: Discovery of colinear syntenic blocks across thousands of prokaryotic genomes
CSBFinder is a standalone Desktop java application with a graphical user interface, that can also be executed via command line. CSBFinder implements a novel methodology for the...2024 days ago
pyGenomeTracks: Standalone program and library to plot beautiful genome browser tracks
pyGenomeTracks aims to produce high-quality genome browser tracks that are highly customizable. Currently, it is possible to plot: bigwig bed (many options) bedgraph links (represented as arcs) Hi-C matrices (if HiCExplorer is installed)2008 days ago
Sequanix: a dynamic graphical interface for Snakemake workflows
...ake framework) with more than 80 re-usable rules (see Rules). Original tools to help in the creation of such pipelines including HTML reports. Standalone applications: sequana_covera...1548 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' genome coverage p...1508 days ago
Liftoff: an accurate tool that maps annotations in GFF or GTF between assemblies
...closely-related species. Unlike current coordinate lift-over tools which require a pre-generated “chain” file as input, Liftoff is a standalone tool that takes two genome as...1409 days ago
MAGIC: A tool for predicting transcription factors and cofactors driving gene sets using ENCODE data
...ticular neuronal subtype 4) Single cell RNAseq analysis of neurons divided by Immediate Early Gene expression levels. In summary, MAGIC is a standalone application that produces mea...1260 days ago
Liftoff: An accurate GFF3/GTF lift over pipeline
...closely-related species. Unlike current coordinate lift-over tools which require a pre-generated “chain” file as input, Liftoff is a standalone tool that takes two genome as...1236 days ago
ExRec: Exclusion of Recombined DNA
...that implements the four-gamete test to filter out recombined DNA sites from up to thousands of DNA sequence loci. The pipeline consists of five standalone applications: the first two c...43 days ago