Comparative Genomics of Triturus Balanced Lethal System Version 1.0

This repository details the bioinformatic pipelines used to investigate the comparative genomics of the balanced lethal system found in Triturus newts Linkage maps for Triturus and Lissotriton are available in the file: Triturus and Lissotriton Linkage Maps.xlsx The sequences of all targets captured in the study are available in the file: triturusTargetsV1Oneliners_7139unique.fasta The associate publication is available on BioRxiv: https://doi.org/10.1101/2024.10.29.620207 The raw data is available via NCBI: bioproject - PRJNA1175462 The study is broken into 6 sections (combined into the .zip file Triturus_Lethal_Evolution-1.00) - each of which contains a detailed readme in its respective folder: The following software was employed for this study: Perl v3.38.0R v4.4BBtools v38.96Trimmomatic v0.39SAMtools v1.18GATK v4.5.0.0VCFtools v0.1.16BCFtools v1.18BLAST+ v2.14.1Lep-MAP3 v.0.5nQuire (cloned from commit 8975c94)