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/leiden
Implementation of the Leiden algorithm called by reticulate in R. (CRAN)
TomKellyGenetics/vioplot
Development version of vioplot R package (CRAN maintainer)
TomKellyGenetics/graphsim
R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)
TomKellyGenetics/MultilayerGraphs.jl
A Julia package for the creation, manipulation and analysis of the structure, dynamics and functions of multilayer graphs.
TomKellyGenetics/tktools
Personal Repository of functions, tools, tweaks, aliases, and settings. R functions documented in package.
TomKellyGenetics/zUMIs
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
TomKellyGenetics/hicup-plus
Hi-C data processing pipeline (with Dragen and HiSAT2 aligners)
TomKellyGenetics/.github
Files for the @nf-core GitHub organisation
TomKellyGenetics/assessment-archives
An archive of all the versions of the Carpentries surveys
TomKellyGenetics/atac-seq-pipeline
ENCODE ATAC-seq pipeline
TomKellyGenetics/bioc-rnaseq
Analysis and Interpretation of Bulk RNA-Seq Data using Bioconductor
TomKellyGenetics/bioc-rnaseq-ja
repository created automatically based on translations. Please submit Issues and PRs to https://github.com/swcarpentry-ja/i18n
TomKellyGenetics/carpentries-coc
Community Documentation for the Carpentries
TomKellyGenetics/cellranger
10x Genomics Single Cell 3' Gene Expression and VDJ Assembly
TomKellyGenetics/cellranger_clean
10x Cell Ranger Docker Image
TomKellyGenetics/dropSeqPipe
A SingleCell RNASeq pre-processing snakemake workflow
TomKellyGenetics/GBS-TaFFE
Analysing RE-RRSeq with GTDB taxonomic framework
TomKellyGenetics/Gviz
This is the Gviz development repository. Gviz plots data and annotation information along genomic coordinates.
TomKellyGenetics/hello-github
Evidence that GitHub contributions are a worthless measure of programming competency or work ethic
TomKellyGenetics/i18n
Where all the translations are controlled from.
TomKellyGenetics/matrixcalc
source for CRAN package matrixcalc
TomKellyGenetics/MeRIPtools
TomKellyGenetics/nf-core-modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
TomKellyGenetics/Rmpi
:exclamation: This is a read-only mirror of the CRAN R package repository. Rmpi — Interface (Wrapper) to MPI (Message-Passing Interface). Homepage: http://fisher.stats.uwo.ca/faculty/yu/Rmpi/
TomKellyGenetics/rockstar
The Rockstar programming language specification
TomKellyGenetics/rtracklayer
R interface to genome annotation files and the UCSC genome browser
TomKellyGenetics/scrnaseq
A single-cell RNAseq pipeline for 10X genomics data
TomKellyGenetics/seurat
R toolkit for single cell genomics
TomKellyGenetics/snow
:exclamation: This is a read-only mirror of the CRAN R package repository. snow — Simple Network of Workstations
TomKellyGenetics/universc
UniverSC: a flexible cross-platform single-cell data processing pipeline