comparative-genomics topic
jcvi
Python library to facilitate genome assembly, annotation, and comparative genomics
mcscan
Command-line program to wrap dagchainer and combine pairwise results into multi-alignments in column format
quota-alignment
Guided synteny alignment between duplicated genomes (within specified quota constraint)
gggenomes
A grammar of graphics for comparative genomics
funannotate
Eukaryotic Genome Annotation Pipeline
anvio
An analysis and visualization platform for 'omics data
ideogram
Chromosome visualization for the web
PPanGGOLiN
Build a partitioned pangenome graph from microbial genomes
SibeliaZ
A fast whole-genome aligner based on de Bruijn graphs
recentrifuge
Recentrifuge: robust comparative analysis and contamination removal for metagenomics