nf-core/deepmutscan is a reproducible, scalable, and community-curated pipeline for analyzing deep mutational scanning (DMS) data using shotgun DNA sequencing.
nf-core/deepmutscan: a reproducible, scalable, and community-curated pipeline for analyzing deep mutational scanning (DMS) data using shotgun DNA sequencing
Metagenomic functional profiling pipeline for reconstructing metabolic pathway abundances and gene families from shotgun sequencing reads. Automates marker-based taxonomic profiling and translated search to quantify community-wide metabolic potential and taxonomically attribute metabolic functions.
Shotgun metagenomics pipeline for pig gut microbiome: QC, host removal, taxonomic and functional profiling
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.
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