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  • ONTrack2 Public

    A Nextflow MinION-based pipeline for tracking species biodiversity

    R 6 GNU General Public License v3.0 Updated Nov 28, 2024
  • UMInator Public

    A Nextflow pipeline for generating consensus sequences from Nanopore reads tagged with UMIs

    R 6 3 GNU General Public License v3.0 Updated Sep 27, 2024
  • MetONTIIME Public

    A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework

    Nextflow 85 17 GNU General Public License v3.0 Updated Jun 3, 2024
  • A Meta-barcoding pipeline for analysing Illumina data in QIIME2 framework

    Shell 3 2 GNU General Public License v3.0 Updated Apr 24, 2024
  • CharONT Public archive

    An ONT-based pipeline for characterizing long genomic regions

    R 5 GNU General Public License v3.0 Updated Feb 19, 2024
  • ONTrack Public archive

    A MinION-based pipeline for tracking species biodiversity

    R 13 3 GNU General Public License v3.0 Updated Feb 19, 2024
  • MetaBlast Public

    A Metagenomic pipeline for parallel Blast analysis and report generation.

    Shell 9 1 GNU General Public License v3.0 Updated Feb 5, 2024
  • A pipeline for schematic IGV visualization of HTT alleles with somatic mosaicism

    Shell 1 GNU General Public License v3.0 Updated Jan 30, 2024
  • CharONT2 Public

    A NextFlow ONT-based pipeline for characterizing long genomic regions

    R 6 1 GNU General Public License v3.0 Updated Dec 16, 2023
  • A pipeline for schematic IGV visualization of FMR1 alleles with somatic mosaicism

    Shell 1 GNU General Public License v3.0 Updated Sep 9, 2023
  • A pipeline for schematic IGV visualization of expanded CNBP alleles with somatic mosaicism

    Shell 1 GNU General Public License v3.0 Updated Sep 9, 2023
  • nf-m6anet Public

    A NextFlow pipeline for m6A detection from Nanopore direct RNA-seq data

    Nextflow 6 GNU General Public License v3.0 Updated Jul 26, 2023
  • ONT_preprocessing Public archive

    A preprocessing pipeline for ONT data

    R 4 1 GNU General Public License v3.0 Updated Jul 24, 2023
  • nf-eligos Public

    A NextFlow pipeline for modifications detection from Nanopore direct RNA-seq data

    Nextflow 1 GNU General Public License v3.0 Updated Jul 21, 2023
  • nf-msspe Public

    A NextFlow pipeline for Metagenomic Sequencing with Spiked Primer Enrichment

    R 3 GNU General Public License v3.0 Updated Jul 2, 2023
  • MetaKraken2 Public

    A Metagenomic pipeline for Kraken2 analysis and Krona report generation.

    Shell 5 1 GNU General Public License v3.0 Updated May 16, 2023
  • A quality check, alignment and small variant calling pipeline for Illumina paired-end reads

    Shell 4 GNU General Public License v3.0 Updated Jan 6, 2023
  • A set of scripts for running the ARTIC pipeline from fast5 ONT data to filtered SARS-CoV-2 variants and coverage plots

    R 3 GNU General Public License v3.0 Updated Aug 29, 2022
  • MaestSi Public

    My personal repository

    Updated Jun 30, 2022
  • A nextflow pipeline for running pycoMeth

    Nextflow 3 GNU General Public License v3.0 Updated May 18, 2022
  • A script for removing artificial duplications introduced by Bionano solve scaffolding pipeline

    R 3 GNU General Public License v3.0 Updated Jul 13, 2021
  • ONToHap Public

    An ONT-based pipeline for haplotype phasing

    R 3 1 GNU General Public License v3.0 Updated Apr 17, 2021
  • A utility to generate input files for taxonomy assignment in QIIME from the NCBI database

    Python GNU General Public License v3.0 Updated Apr 24, 2020