Repositories list

• pacbio-tools

  Public
  Tools for PacBio Sequel data analysis

  pacbiosequel

  Shell

  •

  Other

  •4•8•0•0•Updated Feb 6, 2025Feb 6, 2025

• variant_analysis

  Public
  basic scripts to perform small variant analysis on a server

  Shell

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Feb 5, 2025Feb 5, 2025

• admin-tools

  Public
  sysadmin tasks made easier

  picardgatksamtools+ 1filesender-cmd

  Shell

  •

  Other

  •0•3•0•0•Updated Feb 5, 2025Feb 5, 2025

• aviti-tools

  Public
  scripts and code for the Aviti data

  Shell

  •0•0•0•0•Updated Feb 5, 2025Feb 5, 2025

• benchmarks

  Public
  benchmarks for relevant bio-apps and/or workflows

  HTML

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Jan 31, 2025Jan 31, 2025

• ngs-tools

  Public
  Various wrappers and parsers for NGS data analysis

  ngs

  Shell

  •

  Other

  •1•3•0•0•Updated Jan 29, 2025Jan 29, 2025

• Shiny-apps

  Public
  rstudioshiny-appsshinyapp

  R

  •

  Other

  •0•1•0•0•Updated Dec 12, 2024Dec 12, 2024

• NC_HiFi-16S-workflow

  Public
  Nextflow pipeline to analyze PacBio HiFi full-length 16S data

  Nextflow

  •

  BSD 3-Clause Clear License

  •18•0•0•0•Updated Jul 3, 2024Jul 3, 2024

• NC_cloud-dl

  Public
  Bash script to manage files from nextcloud

  Shell

  •10•0•0•0•Updated Jul 2, 2024Jul 2, 2024

• Kinnex_16S_decat_demux_bash

  Public
  process raw 16S Kinnex data to fastq

  Shell

  •0•0•0•0•Updated Jul 2, 2024Jul 2, 2024

• BRBseq-tools

  Public
  HTML

  •0•0•0•0•Updated Feb 23, 2024Feb 23, 2024

• nanopore-tools

  Public
  Scripts and utilities to process ONT data (MinION)

  nanopore

  Shell

  •

  Other

  •0•4•0•0•Updated Jan 9, 2024Jan 9, 2024

• plotting-tools

  Public
  Shareable code produced at the Core upon request or to support data re-analysis

  plots

  R

  •

  Other

  •0•0•0•0•Updated Jul 14, 2023Jul 14, 2023

• mgi-tools

  Public
  Perl

  •0•0•0•0•Updated Jun 9, 2023Jun 9, 2023

• GPT_templates

  Public
  GNU General Public License v3.0

  •0•0•0•0•Updated Apr 2, 2023Apr 2, 2023

• Rmd-report_template

  Public
  example code

  TeX

  •0•0•0•0•Updated Mar 10, 2023Mar 10, 2023

• 16S_analysis_pipeline

  Public
  Building a pipeline for automated 16S analysis from paired short-reads or long-reads

  pipeline-frameworkamplicon-sequencing16s-rrna+ 1metagenomics-data

  HTML

  •

  GNU General Public License v3.0

  •0•0•0•0•Updated Jan 5, 2023Jan 5, 2023

• pb-16S-nf_tutorial

  Public
  Pacbio 16S data analysis with pb-16S-nf

  HTML

  •

  Other

  •0•0•0•0•Updated Jan 5, 2023Jan 5, 2023

• Opentrons

  Public
  protocols and utilities for the Opentrons robots

  Python

  •

  Other

  •0•0•0•0•Updated Dec 7, 2022Dec 7, 2022

• InSilico_PCR

  Public
  extract long read subsequences from a pair of primers

  ampliconinsilico-pcrbbmap-msa

  Shell

  •1•5•0•0•Updated Feb 11, 2022Feb 11, 2022

• cloud-dl

  Public
  Bash script to manage files from nextcloud

  clinextcloud

  Shell

  •10•1•0•0•Updated May 18, 2021May 18, 2021

• mplotter

  Public
  Creates publication quality dot plot using ggplot

  Shell

  •

  GNU General Public License v3.0

  •3•1•0•0•Updated Mar 25, 2020Mar 25, 2020

• Nanopore_Pinfish_Analysis

  Public
  Customised reporting of ONT pinfish analysis results

  r-markdownoxford-nanoporepinfish+ 1snakemake

  HTML

  •

  Mozilla Public License 2.0

  •0•1•0•0•Updated Sep 9, 2019Sep 9, 2019

• nanopore-tools_wiki

  Public
  HTML

  •0•0•0•0•Updated Aug 19, 2019Aug 19, 2019

• genepattern-tools

  Public
  scripts and wrappers for GenePattern Modules

  Perl

  •

  Other

  •0•0•0•0•Updated Jan 11, 2019Jan 11, 2019

• bionano-tools

  Public
  Custom tools to 'facilitate' BioNano Genomics data analysis

  Perl

  •

  Other

  •6•33•0•0•Updated Oct 22, 2018Oct 22, 2018

• circos-tools

  Public
  Shell

  •

  Other

  •0•0•0•0•Updated Feb 16, 2018Feb 16, 2018