SPAdes Genome Assembler
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Updated
May 21, 2024 - C++
SPAdes Genome Assembler
Public repo for the recount Bioconductor workflow that is visible at http://bioconductor.org/help/workflows/
A state-of-the-art snakemake workflow for amplicon sequencing
Evaluating Nanopore-based bacterial variant calling
R package for the recount2 project. Documentation website: http://leekgroup.github.io/recount/
ClairS-TO - a deep-learning method for tumor-only somatic variant calling
A fully integrated K-mer Informed Toolkit for Bioinformatics
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
Allelic decomposition and exact genotyping of highly polymorphic and structurally variant genes
Aligns short reads using dynamic seed size with strobemers
Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
Scripts and data regarding Vampyrellida genomics.
VIral GEnome ASsembly pipelines for WGS
Assembly and intrahost/low-frequency variant calling for viral samples
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
ClairS - a deep-learning method for long-read somatic small variant calling
Pathogen whole genome sequence (WGS) data analysis pipeline
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