slimsuite

chromsyn

Chromosome-level synteny plotting using orthologous regions

SLiMSuite

Open source short linear motif discovery and sequence analysis

buscomp

BUSCOMP: BUSCO Compiler and Comparison tool

diploidocus

Diploid genome assembly analysis tools

pafscaff

PAFScaff: Pairwise mApping Format reference-based scaffold anchoring and super-scaffolding.

depthsizer

Read-depth based genome size prediction

gapspanner

Genome assembly gap long read support and reassembly tool

numtfinder

NUMTFinder: Nuclear mitochondrial fragment (NUMT) search tool

saaga

SAAGA: Summarise, Annotate & Assess Genome Annotations

SLiMEnrich

SLiMEnrich Shiny App for prediction of domain-motif interactions

snapper

Genome-wide SNP Mapper and Genome Comparison Tool

synbad

Synteny-based scaffolding adjustment

taxolotl

Genome assembly taxonomy summary and assessment tool.

depthcharge

Genome assembly quality control and misassembly repair

depthkopy

Read-depth based copy number estimation

MerquryRising

Merqury parsing and comparison for genome assembly purging QC

quenda

Quenda: Quality Estimation N Depth Analysis

SLiMScape

Cytoscape plugin for discovery and analysis of Short Linear Motifs

telociraptor

Telomere Prediction and Genome Assembly Editing Tool

wgs2tree

A snakemake workflow for generating consensus phylogenomic trees from whole genome sequencing data

deduce

EdwardsLabWiki

Edwards Lab Wiki for miscellaneous documentation development

gapmap

Assembly gap mapping tool

GenomeR

An R Shiny app for kmer-based genome size prediction

SAMPhaser

Diploid chromosome phasing from SAMTools Pileup format

SLiMSuiteShiny

Shiny implementation of SLiMSuite REST parser