Pinned Repositories
alexvpickering.github.io
Content for blog
appsync-serverless-notes-app
Me learning aws-appsync and Serverless Framework
authr
User management for R web-apps built with handlr
ccmap
crossmeta
cross-platform meta-analyis of microarray and rna-seq
GEOfastq
Quickly download fastq files associated with a GEO series
handlr
R as a backend for web apps.
shinydlplot
Add a stylish data download button to a shiny plot(ly)
shinypanel
Shiny control panel with button-attached inputs and tooltips.
dseqr
single-cell and bulk RNA-seq analyses from counts → pathways → drug candidates.
alexvpickering's Repositories
alexvpickering/shinydlplot
Add a stylish data download button to a shiny plot(ly)
alexvpickering/GEOfastq
Quickly download fastq files associated with a GEO series
alexvpickering/shinypanel
Shiny control panel with button-attached inputs and tooltips.
alexvpickering/ccmap
alexvpickering/crossmeta
cross-platform meta-analyis of microarray and rna-seq
alexvpickering/alexvpickering.github.io
Content for blog
alexvpickering/arcasHLA
Fast and accurate in silico inference of HLA genotypes from RNA-seq
alexvpickering/awesome-single-cell
Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.
alexvpickering/ccbench
benchmarking analysis for connectivity mapping
alexvpickering/ccdata
alexvpickering/clus
clus + multi-threading
alexvpickering/doks
Hugo theme helping you build modern documentation websites.
alexvpickering/DropletUtils
Clone of the Bioconductor repository for the DropletUtils package.
alexvpickering/DT
R Interface to the jQuery Plug-in DataTables
alexvpickering/DWLS
Dampened Weighted Least Squares
alexvpickering/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.
alexvpickering/HLA
xHLA: Fast and accurate HLA typing from short read sequence data
alexvpickering/limma
limma with faster lmFit
alexvpickering/nf-deepvariant
Runs Google's Deepvariant from fast.gz files
alexvpickering/nf-gatk4
Nextflow GATK4 variant calling workflow using hg38 with alt contigs. Adapted from NVIDIA Parabricks Germline Pipeline
alexvpickering/nf-hlavbseq
Nextflow workflow for HLAVBSeq HLA typing
alexvpickering/nf-xhla
Nextflow workflow for HLA typing with xHLA. Much faster than HLAVBSeq
alexvpickering/OSCA.advanced
Advanced steps of the OSCA book
alexvpickering/PADOG
Pathway Analysis with Down-weighting of Overlapping Genes
alexvpickering/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.
alexvpickering/rd3
React Redux D3.js Application Example with R as Backend
alexvpickering/revigoR
scrape REVIGO Gene Ontology web app and plot results
alexvpickering/rkal
Run kallisto pseudoalignment on RNA-seq data
alexvpickering/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.
alexvpickering/variancePartition