Snakemake workflows for performing whole genome alignment with Cactus efficiently on SLURM clusters

TOGA2: A faster, more versatile successor of Tool to infer Orthologs from Genome Alignments

base-accurate DNA sequence alignments using WFA and mashmap3

Pairwise whole genome aligner

Fast Tandem Repeat Finder

Portable solution to generate genome alignment chains using lastz

BUSCO_Phylogenomics | Pipeline to construct species phylogenies using BUSCO proteins

Fast genomics quality control tools for sequencing data, written in Rust.

Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data

Evaluate variant calls and its combination with k-mer multiplicity

lumpy: a general probabilistic framework for structural variant discovery

Genome Interval Arithmetic in R

Collection of low-level functions for working with vctrs

Tidy Plots for Scientific Papers

The web framework for content-driven websites. ⭐️ Star to support our work!

Finding Recurrent Substitutions in Multiple Sequence Alignments

Tool for drawing gene structures from genome annotation files.

Genome alignment and synteny plots

The SYNY pipeline investigates synteny between species by reconstructing protein clusters from gene pairs.

Structural variation and indel detection by local assembly

A tutorial on structural variant calling for short read sequencing data

High Performance GWAS Plotting and Annotation

Runs a combination of tools to generate structural variant calls on whole-genome sequencing data

a tool for CNV discovery and genotyping from depth-of-coverage by mapped reads

A set of ready to use Agent Skills for research, science, engineering, analysis, finance and writing.

A scientific plotting library in Rust

Phylogenetic orthology inference for comparative genomics

Synteny and Rearrangement Identifier