Repositories list

• snakemake_rnaseq_combined_workflow

  Public
  Snakemake workflow that runs trimmomatic for trimming, and STAR and/or HISAT2 for aligning.

  Python

  •

  MIT License

  •1•1•0•0•Updated Oct 30, 2024Oct 30, 2024

• snakemake_rnaseq_salmon_workflow

  Public
  Python

  •0•0•0•0•Updated Oct 23, 2024Oct 23, 2024

• Nevada-Bioinformatics-Center-snakemake_suppa_diffsplice_workflow

  Public
  Python

  •0•0•0•0•Updated Oct 23, 2024Oct 23, 2024

• unix_configurations

  Public
  Directory for unix configurations

  0•0•0•0•Updated Oct 15, 2024Oct 15, 2024

• snakemake_gbs_sorghum_mapping_workflow

  Public
  snakemake GBS sorghum mapping pipeline for sorghum data using bowtie2.

  Python

  •0•0•0•0•Updated Sep 29, 2023Sep 29, 2023

• snakemake_ssr_workflow_hipstr

  Public
  A snakemake pipeline to analyze SSR/STR data and call markers in VCF format using HipSTR (https://hipstr-tool.github.io/HipSTR/)

  Python

  •0•1•0•0•Updated Sep 22, 2023Sep 22, 2023

• Simple

  Public
  A fork of the simple pipeline, updated to use conda environment instead of using hard coded software versions.

  C

  •

  Other

  •11•1•0•0•Updated Jan 17, 2023Jan 17, 2023

• snakemake_freyja_covidwastewater

  Public
  Python

  •0•1•0•0•Updated Dec 8, 2022Dec 8, 2022

• biox_robletolab_workshop_2022-08

  Public
  SCSS

  •0•0•0•0•Updated Aug 10, 2022Aug 10, 2022

• snakemake_fastqc_mothur

  Public
  Second workflow that takes the output of the guppy workflow to run fastqc and create a multiQC report. Then run Mothur for analysis.

  Python

  •

  MIT License

  •0•1•0•0•Updated May 24, 2022May 24, 2022

• snakemake_sanger_tracy_variants-

  Public
  Python

  •0•0•0•0•Updated May 5, 2022May 5, 2022

• snakemake_guppy_basecall

  Public
  Python

  •

  MIT License

  •1•0•0•0•Updated Apr 28, 2022Apr 28, 2022

• pronghorn_snakemake_config

  Public
  A simple configuration for having snakemake submit jobs to UNRs pronghorn cluster

  0•0•0•0•Updated Mar 22, 2022Mar 22, 2022

• snakemake_gbs_bowtie2_workflow

  Public
  runs trimming, bowtie2 and QC.

  Python

  •0•0•0•0•Updated Mar 8, 2022Mar 8, 2022

• biox_workshop2022-02

  Public
  SCSS

  •0•0•0•0•Updated Feb 18, 2022Feb 18, 2022

• .github

  Public
  0•0•0•0•Updated Jan 7, 2022Jan 7, 2022

• snakemake_gbs_phasing_workflow

  Public
  Python

  •

  MIT License

  •0•1•0•0•Updated Dec 13, 2021Dec 13, 2021

• repeatmasker_gff2_to_gff3

  Public
  repeatmasker_gff2_to_gff3

  Python

  •

  MIT License

  •1•0•0•0•Updated Sep 16, 2021Sep 16, 2021

• snakemake_rnaseq_SE_workflow

  Public
  A snakemake workflow for RNASeq data using STAR and trimmomatic to process SE read data

  Python

  •

  MIT License

  •0•0•0•0•Updated Sep 10, 2021Sep 10, 2021

• snakemake_rnaseq_hisat2_workflow

  Public
  a snakemake workflow for rnaseq using hisat2

  Python

  •

  MIT License

  •1•0•0•0•Updated Jun 25, 2021Jun 25, 2021

• snakemake_rnaseq_workflow

  Public
  Python

  •

  MIT License

  •1•0•0•0•Updated Jun 23, 2021Jun 23, 2021

• biox_workshop2021-03

  Public
  SCSS

  •554•0•0•0•Updated Mar 19, 2021Mar 19, 2021