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inspirewind
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Download sequencing data and metadata from GSA, SRA, ENA, and DDBJ databases.
Phasing and scaffolding polyploid genomes based on Pore-C or Hi-C.
Code for Adam-mini: Use Fewer Learning Rates To Gain More https://arxiv.org/abs/2406.16793
Efficient phylogenetic clustering of viral sequences
A Python implementation of divisive and hierarchical clustering algorithms. The algorithms were tested on the Human Gene DNA Sequence dataset and dendrograms were plotted.
Versatile open-source tool for microbiome analysis
fast, multithreaded sourmash operations: search, compare, and gather.
Reviews for the Journal of Open Source Software
Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
A complete telomere-to-telomere assembly of sheep: T2T-sheep1.0
Codes for pear haplotype genome and pangenome graph construction
Here, we report telomere-to-telomere (T2T) gap-free genomes for domesticated pepper Capsicum annuum and wild relative Capsicum rhomboideum.
VStrains is a de novo approach for reconstructing strains from viral quasispecies.
Downstream processing of VAMB binning for Viral Elucidation
