pinin4fjords
Bioinformatics Engineer at Seqera, formerly at the EBI and in academic bioinformatics support. Keen on workflows and large-scale reproducible analysis.
SeqeraGlasgow, UK
Pinned Repositories
atlas-baseline-meta-analysis
axtontalens
Simple TALEN assembly R script and associated files
illumina_array_pipeline
A basic make-based pipeline for Illumina array data, from raw to interactive visualisations
shinyngs
Shiny apps for NGS etc based on reusable components created using Shiny modules
upset-shiny-plotly
UpSet plots from a Shiny app, rendered with Plotly
pinin4fjords's Repositories
pinin4fjords/shinyngs
Shiny apps for NGS etc based on reusable components created using Shiny modules
pinin4fjords/nf-core-modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
pinin4fjords/nft-utils
nf-test utility functions
pinin4fjords/training
Nextflow training material
pinin4fjords/atlas-baseline-meta-analysis
pinin4fjords/bioconda-recipes
Conda recipes for the bioconda channel.
pinin4fjords/cheetah3-feedstock
A conda-smithy repository for cheetah3.
pinin4fjords/conda-forge-pinning-feedstock
A conda-smithy repository for conda-forge-pinning.
pinin4fjords/differentialabundance
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
pinin4fjords/fetchngs
Pipeline to fetch metadata and raw FastQ files from public and private databases
pinin4fjords/github_testing
just for fun
pinin4fjords/go-with-the-flow
pinin4fjords/hello
Classic hello world script in Nextflow language
pinin4fjords/hnswlib-feedstock
A conda-smithy repository for hnswlib.
pinin4fjords/mnnpy
An implementation of MNN (Mutual Nearest Neighbors) correct in python.
pinin4fjords/multicore-tsne-feedstock
A conda-smithy repository for multicore-tsne.
pinin4fjords/MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
pinin4fjords/nextflow
A DSL for data-driven computational pipelines
pinin4fjords/nf-aggregate
Pipeline to aggregate pertinent metrics across pipeline runs on the Seqera Platform (beta)
pinin4fjords/nf-co.re
Code and files for the main nf-core website.
pinin4fjords/notebook-demo
pinin4fjords/references
pinin4fjords/ribotricer
A tool for accurately detecting actively translating ORFs from Ribo-seq data
pinin4fjords/scanpy-scripts
Scripts for using scanpy
pinin4fjords/scFlow
Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
pinin4fjords/scrublet
Detect doublets in single-cell RNA-seq data
pinin4fjords/showcase
Infrastructure as code implementation of the seqeralabs/showcase Workspace in Tower Cloud
pinin4fjords/test-datasets
Test data to be used for automated testing with the nf-core pipelines
pinin4fjords/training-material
A collection of Galaxy-related training material
pinin4fjords/UMI-tools
Tools for handling Unique Molecular Identifiers in NGS data sets