alexvpickering

shinydlplot

Add a stylish data download button to a shiny plot(ly)

GEOfastq

Quickly download fastq files associated with a GEO series

shinypanel

Shiny control panel with button-attached inputs and tooltips.

ccmap

crossmeta

cross-platform meta-analyis of microarray and rna-seq

alexvpickering.github.io

Content for blog

arcasHLA

Fast and accurate in silico inference of HLA genotypes from RNA-seq

awesome-single-cell

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

ccbench

benchmarking analysis for connectivity mapping

ccdata

clus

clus + multi-threading

doks

Hugo theme helping you build modern documentation websites.

DropletUtils

Clone of the Bioconductor repository for the DropletUtils package.

DT

R Interface to the jQuery Plug-in DataTables

DWLS

Dampened Weighted Least Squares

find-remove

recursively finds files by filter options from a start directory onwards and deletes these. useful if you want to clean up a directory in your node.js app.

HLA

xHLA: Fast and accurate HLA typing from short read sequence data

limma

limma with faster lmFit

nf-deepvariant

Runs Google's Deepvariant from fast.gz files

nf-gatk4

Nextflow GATK4 variant calling workflow using hg38 with alt contigs. Adapted from NVIDIA Parabricks Germline Pipeline

nf-hlavbseq

Nextflow workflow for HLAVBSeq HLA typing

nf-xhla

Nextflow workflow for HLA typing with xHLA. Much faster than HLAVBSeq

OSCA.advanced

Advanced steps of the OSCA book

PADOG

Pathway Analysis with Down-weighting of Overlapping Genes

PhenoComp

PhenoComp is an algorithm to identify population-level differential genes in one-phenotype data. This algorithm is based on RankComp, an algorithm used to identify individual-level differentially expressed genes in each sample.

rd3

React Redux D3.js Application Example with R as Backend

revigoR

scrape REVIGO Gene Ontology web app and plot results

rkal

Run kallisto pseudoalignment on RNA-seq data

scater

Clone of the Bioconductor repository for the scater package, see https://bioconductor.org/packages/devel/bioc/html/scater.html for the official development version.

variancePartition