De novo assembly of SARS-CoV-2 genome
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Sep 3, 2025 - HTML
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megahit
Here are 5 public repositories matching this topic...
A metagenomics pipeline project that runs sequencing QC, taxonomic profiling, assembly, gene prediction, and functional annotation using common CLI tools (FastQC, MetaPhlAn, MEGAHIT, GeneMarkS, BLAST) plus light Python/shell automation.
assembly metagenomics bioinformatics-pipeline blast fastq genemark fastqc metaphlan megahit taxonomic-profiling
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Dec 30, 2025
A reproducible QIIME 2 MOSHPIT pipeline that assembles, bins, dereplicates and taxonomically classifies whole‑metagenome data. Includes MEGAHIT assembly, MetaBAT 2 binning, BUSCO quality control, Sourmash dereplication and Kraken 2/Bracken abundance estimation. Ideal for microbial‑ecology, functional‑genomics and strain‑level profiling studies.
mag assembly metagenomics binning microbial-ecology qiime2 busco kraken2 bracken megahit shotgun-sequencing moshipt metabat2
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Jun 5, 2026 - Python
Custom Nextflow scripts for microbiome assembly and AntiSMASH BGC analyses. Based around microbiome assemblers: Megahit & MetaSpades
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Sep 8, 2021 - Nextflow
MEGAHIT-based de novo assembly of paired-end sequencing data with assembly statistics and contig generation.
bioinformatics metagenomics genome-assembly de-novo-assembly paired-end-sequencing wsl-ubuntu megahit
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Jun 19, 2026
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