kieranrcampbell Goto Github PK

ouija

Descriptive probabilistic marker gene approach to single-cell pseudotime inference

ouija-paper

Reproducible analysis for Ouija paper

ouijaflow

Probabilistic single-cell pseudotime with Edward+Tensorflow

oxford-thesis

Oxford DPhil thesis

phenopath

Genomic trajectories (pseudotimes) in the presence of heterogenous environmental and genetic backgrounds

phenopath_analyses

phenopath_revisions

pseudogp

Probabilistic pseudotime for single-cell RNA-seq data

pseudogp-paper

Reproducible analysis for "Order under uncertainty: on the robustness of differential expression analysis using probabilistic models for pseudotime inference"

r-workshop-march-2019

R workshop on single cell genomics at BC Cancer March 2019

rstanadvi

Small R wrapper for variational inference in Stan

scangen-website

Website for single-cell cancer genomics workshop at ISMB2018

scde-scratch

Expectation maximisation for concomitant variable NB models in python

scrnaseq-digestion-paper

BC Cancer single-cell RNA-seq digestion method paper

slmgae

snvworkflow

spatialpro

R package for spatial proteomics data

spatialstats

Statistical methods for spatial proteomics data

stan-workshop

STAN workshop for GMS students

standr

Spatial transcriptomics analyses and decoding in R

stat-genomics-docker

Docker file for statistical genomics (single-cell focus)

switchde

Inference of switch-like differential expression along single-cell trajectories

synthetic-admix

Create synthetic bulk RNA-seq data from a mix of single-cell data of known types

synthmix

Synthetic admix and quantification of bulk RNA-seq data from single cells

tcga-gene-dosage

A Nextflow pipeline for identifying gene dosage effects from TCGA

tcga_phenotime