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QuasR: Quantification and annotation of short reads in R
...gh the Rhisat2 package). The package aims to cover the whole analysis workflow of typical high throughput sequencing experiments, starting from the raw sequence reads, over pre-proc...1047 days ago
PaReBrick: PArallel REarrangements and BReaks identification toolkit
PaReBrick. The tool takes a collection of strains represented as a sequence of oriented synteny blocks and a phylogenetic tree as input data. It identifies rearrangem...991 days ago
MitoZ: a toolkit for animal mitochondrial genome assembly, annotation and visualization
...ondrial Scaffolds), annotation and visualization, that can generate mitogenome assembly together with annotation and visualization results from HTS raw reads. https://academic.oup....938 days ago
Smudgeplot: Inference of ploidy and heterozygosity structure using whole genome sequencing data
...+ CovB)). Such an approach also allows us to analyze obscure genomes with duplications, various ploidy levels, etc. Smudgeplots are computed from raw or even better from trimmed r...852 days ago
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MitoHiFi: a python pipeline for mitochondrial genome assembly from PacBio high fidelity reads
MitoHiFi v3.2 is a python pipeline distributed under MIT License ! MitoHiFi was first developed to assemble the mitogenomes for a wide range of species in the Darwin Tree of Life Project (DToL) https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-023-05385-y294 days ago