Pinned Repositories
leafcutter
Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard
ALS_SpinalCord_QTLs
Data Portal for NYGC ALS Spinal Cord
FTLD-TDP_analysis
"All code written for Transcriptomic analysis of frontotemporal lobar degeneration with TDP-43 pathology reveals cellular alterations across multiple brain regions"
jackhump.github.io
Personal website
leafviz
Just the leafviz parts of Leafcutter
PSP_GWAS
Functional Genomics on the PSP GWAS
sQTLviz
visualising LeafCutter sQTLs
sqtlviztools
functions for sQTL visualisation
WGS-QC-Pipeline
A Snakemake pipeline for Quality Control of Whole Genome Sequencing data
jackhump's Repositories
jackhump/WGS-QC-Pipeline
A Snakemake pipeline for Quality Control of Whole Genome Sequencing data
jackhump/leafviz
Just the leafviz parts of Leafcutter
jackhump/ALS_SpinalCord_QTLs
Data Portal for NYGC ALS Spinal Cord
jackhump/sQTLviz
visualising LeafCutter sQTLs
jackhump/sqtlviztools
functions for sQTL visualisation
jackhump/FTLD-TDP_analysis
"All code written for Transcriptomic analysis of frontotemporal lobar degeneration with TDP-43 pathology reveals cellular alterations across multiple brain regions"
jackhump/PSP_GWAS
Functional Genomics on the PSP GWAS
jackhump/CryptEx
Scripts used to discover and quantify non-annotated cryptic splicing in RNA-seq data
jackhump/featuremaps
An R package for creating sophisticated plots of genomic intersections.
jackhump/FUS_intron_retention
Scripts written for the FUS NLS mutation comparison with FUS KO project
jackhump/leafcutter
Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae Kyung Im, Jonathan K. Pritchard
jackhump/fidelio
assessing spliceosome fidelity from RNA-seq junction reads
jackhump/jackhump.github.io
Personal website
jackhump/CMC_sQTLviz
Visualising LeafCutter sQTLs found in the CommonMind Consortium (CMC) brain dataset
jackhump/editing-pipeline
A set of snakemake pipelines for doing RNA editing
jackhump/gganatogram
Create anatograms using ggplot2
jackhump/hnRNPK
All code written for hnRNPK manuscript
jackhump/jacktools
a set of scripts for stupid things I have to do regularly. Mostly just a wrapper for BedTools.
jackhump/learning_web_dev
Stuff I worked on for a Web Development course in June 2017
jackhump/long_genes
where I keep my long genes scripts
jackhump/misc_scripts
jackhump/New_beginnings_2.0
Important lab information for new starters!
jackhump/opthalmology_work
Work for the UCL Institute of Opthalmology
jackhump/pbmm2
A minimap2 frontend for PacBio native data formats
jackhump/phd_thesis
My thesis - due for submission in November 2018
jackhump/RNA-pipelines
A repo to contain various RNA-seq processing pipelines, to cut down how many different repos I have.
jackhump/ROSMAP_sQTLviz
Visualising LeafCutter sQTLs found in the ROSMAP brain dataset
jackhump/splicing_fidelity
jackhump/stanford_brain_work
Work in the Pritchard Lab at Stanford, CA
jackhump/Two_TDP-43_Mutant_Mice
scripts written for Fratta et al "Endogenous TDP-43 mutant mice have novel gain of splicing function and ALS characteristics in vivo"