Stars
Catalogue of pairwise alignment algorithms and benchmarks
paoloshasta / shasta
Forked from chanzuckerberg/shastaDe novo assembly from Oxford Nanopore reads.
Structural Variant Identification Method using Genome Assemblies
This is used to call Codeml to calculate the positive selection of gene in Branch-Sites Model.(Require codon sequence)
SyntenyFinder contains a collection of scripts to easily perform and visualize macrosynteny analysis when provided with the accessions of annotated chromosome-level genome assemblies from NCBI.
Tandem repeat expansion detection or genotyping from long-read alignments
A minimap2 frontend for PacBio native data formats
a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference
PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
An updated pipeline for pangenome investigation
MCHelper: An automatic tool to curate transposable element libraries
A gap-closing software tool that uses long reads to enhance genome assembly.
A genome-scale, fast, and precise segmental duplications mapping tool
Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
Haplotypes phase-switching errors correction in long reads
Toolkit for calling structural variants using short or long reads
Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
Detecting multi-genome synteny using minimizer graph mapping