Genome assembly quality assessment using QUAST
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Jun 18, 2026 - HTML
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quast
Here are 13 public repositories matching this topic...
🦇🧫📊Study on bat gut shotgun metagenomics
phylogenetics beta-diversity microbial-communities blast spades differential-abundance-analyses fastq-files refseq alpha-diversity prokka quast kraken2 abricate lab-journal maaslin2 shotgun-metagenomics fastani humann3 virsorter2
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May 21, 2026 - Jupyter Notebook
reproducible Snakemake pipeline for bacterial hybrid assembly.
python snakemake nanopore illumina genome-assembly masurca snakemake-workflow hybrid-assembly quast polca snakemake-pipeline flye bacterial-genomics filtlong
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Jun 30, 2026 - Python
Automated Bash pipeline for hybrid de novo bacterial genome assembly, combining Oxford Nanopore (ONT) and Illumina reads with QC, polishing (POLCA), and evaluation (QUAST).
bash bioinformatics pipeline illumina genome-assembly masurca nanopore-sequencing hybrid-assembly quast flye bacterial-genomics bash-pipeline filtlong
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Jun 30, 2026 - Shell
QUAST assembly assessment using a reference genome.
bioinformatics genome-assembly reference-genome wsl-ubuntu bacterial-genomes quast lactiplantibacillus-plantarum assembly-assessment
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Jun 21, 2026 - HTML
Reusable comparative bacterial genomics pipeline for assembled bacterial genome FASTA files using QUAST, Bakta, FastANI, Panaroo, and FastTree.
bioinformatics comparative-genomics phylogeny quast fastani panaroo bacterial-genomics bakta genomics-pipeline
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May 27, 2026 - Python
Run multiple metagenome filtering programs using Docker containers
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Nov 3, 2025 - Shell
The repository contains a comprehensive pipeline for genome assembly and quality assessment, designed for genomic data analysis. It integrates various bioinformatics tools for accurate genome assembly.
spades fastp quast nextflow-pipeline dynamic-command-construction-for-preprocessing scalability-across-computational-environments a-detailed-demonstration-of-naming-consistency trimming-combinations
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Jun 15, 2024 - HTML
Reusable bacterial genome analysis pipeline for paired-end FASTQ data using FastQC, fastp, SPAdes, QUAST, Prokka, and MultiQC.
bioinformatics quality-control genome-annotation multiqc spades genome-assembly fastqc fastp prokka quast bacterial-genomics genomics-pipeline
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May 27, 2026 - Shell
A modular, reproducible, and automated Bash pipeline for bacterial isolate whole-genome sequencing analysis from Illumina paired-end reads, including quality control, taxonomic classification, genome assembly, genome characterization, and coverage estimation.
linux bash bioinformatics genomics amr microbiology mlst wgs spades samtools whole-genome-sequencing bowtie2 antimicrobial-resistance quast kraken2 bracken abricate checkm bacterial-genomics amrfinderplus
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Jul 31, 2026 - Shell
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