Genome Assembly and Annotation Service code

⚡ ♒ Rapid prokaryotic genome annotation

This is the standalone version of the EviAnn pipeline

BAsh-Based Automated Parallel Positive selection Analysis

Full automatic pipelines to mine OR, TAAR, V2R and V1R genes from any vertebrate genome

Whole Genome Alignment Tools

the scripts were used to perform comparative genomic analysis

A tracked repository dedicated to gene annotation tracking for Myotis species

Useful scripts for fasta

Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation

Newick tree processing

biodiversity genomics course by Nicol Rueda, Karin Näsvall and Joana Meier from the Wellcome Sanger Institute

biodiversity genomics course by Nicol Rueda, Karin Näsvall and Joana Meier from the Wellcome Sanger Institute

The toolbox used to deal with cactus whole genome alignments

Tutorials on phylogenetic and phylogenomic inference

CAAStools is a bioinformatics toolbox that allows the user to identify and validate CAAS on MSA of orthologous proteins.

Repository for code and files related to the manuscript Vargas-Chávez et al. 2024. A punctuated burst of massive genomic rearrangements by chromosome shattering and the origin of non-marine annelids

Utilities for the genomic chain format

Calculate circos format data of GC content and GC skew from genome data.

Scripts and pipeine for Genome_assembly_annotation

HapHiC: a fast, reference-independent, allele-aware scaffolding tool based on Hi-C data

📦 An R package for accessing genomics data from UCSC Xena platform, from cancer multi-omics to single-cell RNA-seq https://cran.r-project.org/web/packages/UCSCXenaTools/

Convergence analysis using relative rate and correcting for phylogenetic relatedness

scripts for the analysis of HGT in genome sequence data

SHOOT.bio - the phylogenetic search engine