TomKellyGenetics
Bioinformatician. Alumni @mikblacklab Otago, @minoda-lab RIKEN & @hugp-ri. The @carpentries instructor. Genomics | Health | Math | Stats | AWS Dev
@AgResearch InvermayOtago, New Zealand
Pinned Repositories
universc
UniverSC: a flexible cross-platform single-cell data processing pipeline
i18n
Repository for managing Japanese translations of Software Carpentry lessons
graphsim
R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)
heatmap.2x
Enhancements to Heatmap.2 from the gplots R package
hicup-plus
Hi-C data processing pipeline (with Dragen and HiSAT2 aligners)
info.centrality
R package: Extensions to iGraph for Information Centrality
leiden
Implementation of the Leiden algorithm called by reticulate in R. (CRAN)
studyGroup
vioplot
Development version of vioplot R package (CRAN maintainer)
vioplotx
A development version of the vioplot R package. This has been migrated to "vioplot" as version 0.3.
TomKellyGenetics's Repositories
TomKellyGenetics/heatmap.2x
Enhancements to Heatmap.2 from the gplots R package
TomKellyGenetics/bbknn
Implementation of the BBKNN algorithm called by reticulate in R.
TomKellyGenetics/DoubletDetection
Doublet detection in single-cell RNA-seq data (R package).
TomKellyGenetics/plot.igraph
R package: Extensions to iGraph for Custom Plots (integrated into graphsim CRAN package)
TomKellyGenetics/2015-02-11-instructor-training
Planning and documents for the instructor training event at The University of Melbourne, 11-13 Feb, 2015
TomKellyGenetics/badger
Badge for R Package
TomKellyGenetics/cellranger-docker
Docker container for Cell Ranger
TomKellyGenetics/fastq-rs
TomKellyGenetics/FLOWMAP
TomKellyGenetics/ggplot2
An implementation of the Grammar of Graphics in R
TomKellyGenetics/htslib
C library for high-throughput sequencing data formats
TomKellyGenetics/martian
Language and framework for high performance computational pipelines.
TomKellyGenetics/meetingsR
A list of R conferences and user groups
TomKellyGenetics/NvidiaNanporeWorkshop
TomKellyGenetics/oocPCA
Out-of-Core Principal Component Analysis
TomKellyGenetics/outsider
:black_square_button::registered: Install and run programs, outside of R, inside of R
TomKellyGenetics/python-ecology-lesson
:page_with_curl: Data Carpentry Python lessons on ecology.
TomKellyGenetics/rAltmetric
Query and visualize metrics from altmetric.com
TomKellyGenetics/regex
An implementation of regular expressions for Rust. This implementation uses finite automata and guarantees linear time matching on all inputs.
TomKellyGenetics/reticulate
R Interface to Python
TomKellyGenetics/Rphenograph
Rphenograph: R implementation of the PhenoGraph algorithm
TomKellyGenetics/rust-boomphf
Fast and scalable minimal perfect hashing for massive key sets
TomKellyGenetics/rust-debruijn
De Bruijn graphs in Rust
TomKellyGenetics/simple-icons
SVG icons for popular brands
TomKellyGenetics/swne
Similarity Weighted Nonnegative Embedding (SWNE), a method for visualizing high dimensional datasets
TomKellyGenetics/tidytext
Text mining using dplyr, ggplot2, and other tidy tools :sparkles::page_facing_up::sparkles::page_facing_up::sparkles:
TomKellyGenetics/TokyoR78
Slides and Demonstration for Tokyo R 78th meeting (May 25) in parallel computing in r
TomKellyGenetics/tsne
A python wrapper for Barnes-Hut tsne
TomKellyGenetics/umapr
UMAP dimensionality reduction in R
TomKellyGenetics/velocyto.R
RNA velocity estimation in R