Repositories list

• bistro

  Public
  R

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  Other

  •0•2•2•0•Updated Nov 20, 2024Nov 20, 2024

• 2024-07-29-DiscovR

  Public
  HTML

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  Other

  •0•0•0•0•Updated Jul 24, 2024Jul 24, 2024

• imbibe_manuscript

  Public
  Code and figures related to the imbibe manuscript

  0•0•0•0•Updated Apr 11, 2024Apr 11, 2024

• bistro_pipeline

  Public
  Matching mosquito bloodmeals to people

  R

  •

  MIT License

  •0•0•0•0•Updated Nov 20, 2023Nov 20, 2023

• bistro_validation

  Public
  Data, code, and figures related to the bistro R package manuscript

  HTML

  •

  MIT License

  •0•1•0•0•Updated Nov 17, 2023Nov 17, 2023

• haplotype_recovery_experiment

  Public
  Data, code, and figures related to the manuscript "Analytic optimization of Plasmodium falciparum marker gene haplotype recovery from amplicon deep sequencing of complex mixtures"

  HTML

  •

  MIT License

  •1•0•0•0•Updated Nov 12, 2023Nov 12, 2023

• DiscovR

  Public
  Curriculum for the DiscovR workshop

  HTML

  •

  Other

  •2•2•2•0•Updated Oct 3, 2023Oct 3, 2023

• BRAVA

  Public template
  HTML

  •

  MIT License

  •0•0•5•0•Updated Jun 12, 2023Jun 12, 2023

• 2023-07-24-DiscovR

  Public template
  HTML

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  Other

  •0•0•0•0•Updated Jun 12, 2023Jun 12, 2023

• parasite-host-comparison

  Public
  Data and code related to "Plasmodium falciparum genetic diversity in coincident human and mosquito hosts"

  HTML

  •

  MIT License

  •0•0•0•0•Updated May 21, 2023May 21, 2023

• Parasite-density-and-transmission-manuscript

  Public
  Data and code for manuscript

  0•0•0•0•Updated May 8, 2023May 8, 2023

• Sub-patent-risk-manuscript

  Public
  0•0•0•0•Updated Mar 13, 2023Mar 13, 2023

• mozzie_epitope_analysis

  Public
  MIT License

  •0•2•0•0•Updated Oct 18, 2022Oct 18, 2022

• 2022-07-12-DiscovR

  Public template
  Website for the 2022 DiscovR Workshop in Kenya

  HTML

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  Other

  •0•0•0•0•Updated Jul 12, 2022Jul 12, 2022

• Turkana_haplotypes

  Public
  Script and figures related to manuscript entitled "Plasmodium falciparum importation does not sustain malaria transmission in a semi-arid region of Kenya"

  R

  •

  MIT License

  •0•0•0•0•Updated Jun 15, 2022Jun 15, 2022

• human_mosquito_manuscript

  Public
  Final publication here: https://www.nature.com/articles/s41467-021-21269-2

  R

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

• Sickle-trait-RNAseq

  Public
  Code, data, and output for Saelens JW et al. mSphere 2021: https://doi.org/10.1128/msphere.00755-21

  Jupyter Notebook

  •1•0•0•0•Updated Sep 19, 2021Sep 19, 2021

• time_to_symptomatic_malaria

  Public
  Code for time-to-symptomatic malaria manuscript analysis. Final publication is here: https://elifesciences.org/articles/68812

  R

  •

  MIT License

  •0•1•0•0•Updated Jun 20, 2021Jun 20, 2021

• 2021PLOSPathogens

  Public
  Data and scripts for this PLoS Pathogens paper: https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1009659

  Jupyter Notebook

  •

  MIT License

  •0•0•0•0•Updated May 31, 2021May 31, 2021

• haplotype_calling_tutorial

  Public
  This repository describes the steps for receiving sequencing reads from the Duke Sequencing Core, cleaning those reads, calling haplotypes, and censoring haplotypes for Plasmodium falciparum.

  R

  •0•0•0•0•Updated May 13, 2021May 13, 2021

• TaylorLabHARDAC_tutorial

  Public
  Joe's HARDAC tutorial

  Python

  •1•0•0•0•Updated Mar 2, 2021Mar 2, 2021