Python library to facilitate genome assembly, annotation, and comparative genomics
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Updated
Jun 6, 2024 - Python
Python library to facilitate genome assembly, annotation, and comparative genomics
Pipelines for the production of Treeval data
Pipeline to create phage genome synteny graphics from genbank files
A genome visualization python package for comparative genomics
Synteny Mapping and Analysis Program
[CRBHits](https://github.com/kullrich/CRBHits) is a reimplementation of the Conditional Reciprocal Best Hit algorithm [crb-blast](https://github.com/cboursnell/crb-blast) in R.
An R package to infer and analyze synteny networks from protein sequences
AKRUP: ancestral karyotype reconstruction universal pipeline
Federating genomes with love (and synteny derived from functional annotations)
R package to visualize Synteny across biological species
Query sequence database by HMMs arranged in predefined synteny structure
Run and compare algorithms for phylogenetic reconciliation and super-reconciliation
Custom scripts and workflows used in the genomics and population analysis of oat crown rust (Puccinia coronata f. sp. avenae) preprint (bioRxiv 2023.09.18.557855). All steps performed in Linux environment or R.
A Java Desktop application with a graphical user interface for the discovery of colinear syntenic blocks across thousands microbial genomes
A visualization tool for viewing MCscanX Synteny Collinearity files (outdated please check description or readme)
Finding regions of similarity between plasmids
CLfinder-OrthNet, a pipeline to encode orthologs from multiple genomes and their evolutionary history into networks (OrthNets) based on co-linearity between them. OrthNets enable detection of all orthologous gene groups that share the same evolutionary history, using a search based on network topology
CoGe (Comparative Genomics) Platform
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