Repositories list

• sequence_handling

  Public
  A series of scripts to automate sequence workflows

  workflownanoporepipeline+ 2

  workflownanoporepipelinenext-generation-sequencingsequence-processing

  Jupyter Notebook

  •1111 forks•1818 stars•44 issues•11 pull request•Updated Oct 7, 2026Oct 7, 2026

• MorrellLab.github.io

  Public
  Morrell lab website

  HTML

  •22 forks•00 stars•00 issues•00 pull requests•Updated Sep 30, 2026Sep 30, 2026

• cowpea_environmental

  Public
  Environmental association analysis in a cowpea collection

  R

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•11 star•00 issues•00 pull requests•Updated Sep 24, 2026Sep 24, 2026

• SNP_Utils

  Public
  Extract SNP positions from BLAST XML and SAM formats

  Python

  •22 forks•11 star•00 issues•11 pull request•Updated Jul 17, 2026Jul 17, 2026

• sequence_accessories

  Public
  Accessory scripts for sequence_handling

  Shell

  •00 forks•11 star•00 issues•00 pull requests•Updated Jul 17, 2026Jul 17, 2026

• morex_reference

  Public
  Preparation and processing steps related to all versions of the morex reference genome

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Dec 11, 2025Dec 11, 2025

• WildIntrogression

  Public
  Searching for runs of IBS in introgressed wild barley

  Jupyter Notebook

  •

  BSD 2-Clause "Simplified" License

  •00 forks•11 star•00 issues•00 pull requests•Updated Sep 13, 2025Sep 13, 2025

• File_Conversions

  Public
  Scripts to convert between file formats for various analyses

  Python

  •66 forks•1616 stars•00 issues•00 pull requests•Updated May 10, 2025May 10, 2025

• BAD_Mutations

  Public
  Deleterious mutation prediction pipeline

  Python

  •

  MIT License

  •55 forks•1313 stars•1818 issues•00 pull requests•Updated Dec 16, 2024Dec 16, 2024

• Soybean-CNV

  Public
  00 forks•00 stars•00 issues•00 pull requests•Updated May 25, 2024May 25, 2024

• Williams82_reference

  Public
  Preparation and processing steps related to various versions of the Williams82 reference genome

  Shell

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Feb 23, 2024Feb 23, 2024

• cowpea_annotation

  Public
  annotating cowpea SNPs

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •22 forks•00 stars•00 issues•00 pull requests•Updated Feb 9, 2024Feb 9, 2024

• Barley_Mutated

  Public
  Jupyter Notebook

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 16, 2023Sep 16, 2023

• captured_50x_BED

  Public
  Scripts used to make the captured_50x_partsRef.bed

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated May 8, 2023May 8, 2023

• NorthAmerica_Fst

  Public
  Information related to the North American breeding programs Fst study

  R

  •11 fork•00 stars•00 issues•00 pull requests•Updated Feb 22, 2023Feb 22, 2023

• Cowpea_Pangenome

  Public
  Code for the cowpea pan-genome project

  HTML

  •

  BSD 3-Clause "New" or "Revised" License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 4, 2022Nov 4, 2022

• Locus_HvUGT13248

  Public
  Locus of interest for Gerit Bethke's project. Panel includes wild, landrace, and elite samples that were previously published in other studies.

  HTML

  •

  MIT License

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 27, 2022Sep 27, 2022

• Barley_NAM_Parents

  Public
  Processing scripts and documentation for the 2-row and 6-row NAM parents

  Shell

  •00 forks•00 stars•00 issues•00 pull requests•Updated Sep 27, 2022Sep 27, 2022

• DoesNaughtCompute

  Public
  Code and example datasets for Does[0]Compute

  HTML

  •33 forks•1212 stars•00 issues•00 pull requests•Updated Dec 2, 2021Dec 2, 2021

• Context_Variants_Soy

  Public
  The nature and context of variants and new mutations in soybean.

  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Nov 5, 2021Nov 5, 2021

• Nanopore

  Public
  Lab-specific protocols and data handling for Nanopore sequencing with the MinION.

  Shell

  •00 forks•11 star•00 issues•00 pull requests•Updated Aug 12, 2021Aug 12, 2021

• SNPMeta

  Public
  SNPMeta collects metadata for SNP markers from BLAST searches against public databases.

  Python

  •11 fork•22 stars•00 issues•00 pull requests•Updated Apr 16, 2021Apr 16, 2021

• PopGenTheory

  Public
  Informal discussion group centered on population genetics and evolutionary genetics theory.

  22 forks•22 stars•00 issues•00 pull requests•Updated Feb 29, 2020Feb 29, 2020

• Deleterious_GP

  Public
  Deleterious mutations in a genomic prediction experiment

  R

  •00 forks•66 stars•00 issues•00 pull requests•Updated Sep 10, 2019Sep 10, 2019

• IPK_Landraces

  Public
  HTML

  •00 forks•00 stars•00 issues•00 pull requests•Updated Jun 13, 2019Jun 13, 2019

• Env_Assoc

  Public
  Environmental Associations project

  R

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jun 13, 2019Jun 13, 2019

• Nanopore_sequencing

  Public
  This is for Nanopore sequencing.

  11 fork•00 stars•00 issues•00 pull requests•Updated May 7, 2019May 7, 2019

• LabUtilities

  Public
  Melting pot of useful scripts from lab members

  00 forks•00 stars•00 issues•00 pull requests•Updated Apr 22, 2019Apr 22, 2019

• Soy_Downsampling

  Public
  Processing scripts and documentation for the soybean downsampling sub-project

  Shell

  •00 forks•00 stars•00 issues•00 pull requests•Updated Oct 9, 2018Oct 9, 2018

• SNPtoSEQ

  Public
  Capture contextual sequences for a SNP

  Python

  •11 fork•00 stars•00 issues•00 pull requests•Updated Jun 12, 2017Jun 12, 2017