jenni-westoby
Bioinformatician with interests in bioinformatics, precision medicine and single-cell RNA-seq.
Enhanc3d Genomics
Pinned Repositories
Benchmarking_pipeline
This is the pipeline used to perform the RSEM simulation based BLUEPRINT and Kolodziejczyk et al. benchmarks.
BLUEPRINT
Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
Drop-seq_pipeline
This is the pipeline to perform a Drop-seq simulation based benchmark - see https://www.biorxiv.org/content/early/2018/01/17/248716
ES_cell_pipeline
Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
Isoform_Cell_Matrix_Generation
Pipelines used to generate isoform-cell counts matrices, as described in [link]
Julia_GPU_examples
Github host for Julia GPU tutorial hosted at https://jenni-westoby.github.io/Julia_GPU_examples/dev/
Obstacles
Obstacles to Studying Alternative Splicing Using scRNA-seq
RNG_JuliaGPU
A basic GPU implementation of the Mersenne Twister algorithm in Julia
jenni-westoby's Repositories
jenni-westoby/Julia_GPU_examples
Github host for Julia GPU tutorial hosted at https://jenni-westoby.github.io/Julia_GPU_examples/dev/
jenni-westoby/Benchmarking_pipeline
This is the pipeline used to perform the RSEM simulation based BLUEPRINT and Kolodziejczyk et al. benchmarks.
jenni-westoby/Obstacles
Obstacles to Studying Alternative Splicing Using scRNA-seq
jenni-westoby/Drop-seq_pipeline
This is the pipeline to perform a Drop-seq simulation based benchmark - see https://www.biorxiv.org/content/early/2018/01/17/248716
jenni-westoby/ES_cell_pipeline
Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
jenni-westoby/Isoform_Cell_Matrix_Generation
Pipelines used to generate isoform-cell counts matrices, as described in [link]
jenni-westoby/BLUEPRINT
Benchmarking pipeline published in https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1571-5
jenni-westoby/RNG_JuliaGPU
A basic GPU implementation of the Mersenne Twister algorithm in Julia
jenni-westoby/Augmentor.jl
A fast image augmentation library in Julia for machine learning.
jenni-westoby/Benchmark_Bulk_Analysis
This is the pipeline to perform the bulk RNA-seq simulation based benchmark.
jenni-westoby/Benchmark_figures
jenni-westoby/Benchmark_paper_isoforms
Instructions to perform isoform quantification on real bulk RNA-seq data.
jenni-westoby/calculator
Getting started with ANTLR.
jenni-westoby/coverage_cell_number_study
jenni-westoby/hello_world
practice repository
jenni-westoby/heroku
jenni-westoby/iPredict_thesis
Record of code used to produce figures in chapter 3 of PhD thesis
jenni-westoby/Polyester_Simulations
This is the pipeline to perform the Polyester and Splatter simulation based benchmark
jenni-westoby/RSEM
RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
jenni-westoby/RSEM_tutorial
A short tutorial on how to use RSEM
jenni-westoby/StayUnfocusd
My CS50 final project - a Chrome Extension called StayUnfocusd. This is the minimum viable product for an extension in which users enter websites they want to avoid. If they subsequently visit those websites, they are rickrolled.
jenni-westoby/structural_inequality
github pages for structural inequality blog
jenni-westoby/Tabula_Muris_Gencode