Stars
An R package to infer and analyze synteny networks from protein sequences
high-performance BED-to-GTF converter written in Rust
Repository containing code written by James, Trevisan-Herraz et al. (2023) investigating the evolution of TADs and gene essentiality. All code written to work on R 4.0.2
Code for the analyses and simulations involved in the Genomic Contact Dynamics research.
Infering ancestral synteny with hierarchical orthologous groups
A curated list of awesome ggplot2 tutorials, packages etc.
This tutorial runs through the basics of ggplot2 and how to make a figure ready for publication.
Computational suite for analyzing chromosomes and centromeres based on distance values between DNA motifs
Code to reproduce analyses in Kim et al. 2024
It can use for genome_annotation_report file
Code, data and figures for Kurbidaeva et al. “Topologically associating domains and the evolution of 3D genome architecture in rice”
Interspecies Point Projection - A tool for comparative genomics beyond alignable sequence
A beautiful portfolio Jekyll theme that works with GitHub Pages.
The expanded Bostrychia moritziana genome unveils evolution in the most diverse and complex order of red algae
Visualising data frames as funky heatmaps 📊
In this repo, I explain how can we use clusterProfiler and Tidyverse to perform (GO or KEGG) enrichment analysis in R.
The tool is employed for the visualisation of genome-wide contact heatmaps.
A simple program for evaluate the assembly of a give genome.
Fontanka is a set of tools to work with fountains in Hi-C data. It aims to provide a flexible Python API and specialized CLI for calling fountains from cool Hi-C files.