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    7 repositories

    • build-sourmash-index

      Public
      Build a database of sourmash signatures from a genomic library.
      Nextflow
      •
      GNU Affero General Public License v3.0
      •0•2•0•0•Updated Mar 21, 2022Mar 21, 2022

    • sra-demo-benchmark

      Public
      A demo workflow showing download, extraction, and compression of sequences from SRA.
      dockernextflowcondasrasra-toolkit
      HTML
      •
      GNU Affero General Public License v3.0
      •0•1•1•0•Updated Jul 31, 2021Jul 31, 2021

    • coptr

      Public archive
      Accurate and robust inference of microbial growth dynamics from metagenomic sequencing
      Python
      •
      GNU General Public License v3.0
      •5•0•0•0•Updated Jun 28, 2021Jun 28, 2021

    • Comparison_of_DA_microbiome_methods

      Public archive
      R
      •20•0•0•0•Updated May 11, 2021May 11, 2021

    • kraken2-humgut

      Public archive
      Build a kraken2 database and bracken mappings from the HumGut genome clusters.
      Nextflow
      •
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Oct 6, 2020Oct 6, 2020

    • bracken-nf

      Public archive
      Map metagenomic reads to operational taxonomic units (OTUs) using kraken2 and estimate bacterial abundances with bracken.
      Nextflow
      •
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Jun 22, 2020Jun 22, 2020

    • shotgun-qc-nf

      Public archive
      A nextflow pipeline definition for generating quality control reports for shotgun metagenomic sequences.
      Nextflow
      •
      GNU Affero General Public License v3.0
      •0•0•0•0•Updated Jun 21, 2020Jun 21, 2020