Jonathan Manning's repositories
nf-core-modules
Repository to host tool-specific module files for the Nextflow DSL2 community!
bioconda-recipes
Conda recipes for the bioconda channel.
cheetah3-feedstock
A conda-smithy repository for cheetah3.
conda-forge-pinning-feedstock
A conda-smithy repository for conda-forge-pinning.
differentialabundance
Differential abundance analysis for feature/ observation matrices from platforms such as RNA-seq
fetchngs
Pipeline to fetch metadata and raw FastQ files from public and private databases
harmonypy
🎼 Integrate multiple high-dimensional datasets with fuzzy k-means and locally linear adjustments.
github_testing
just for fun
hello
Classic hello world script in Nextflow language
hnswlib-feedstock
A conda-smithy repository for hnswlib.
mnnpy
An implementation of MNN (Mutual Nearest Neighbors) correct in python.
multi-package-containers
Testing building mulled containers for multi-requirement tools.
multicore-tsne-feedstock
A conda-smithy repository for multicore-tsne.
MultiQC
Aggregate results from bioinformatics analyses across many samples into a single report.
nf-aggregate
Pipeline to aggregate pertinent metrics across pipeline runs on the Seqera Platform (beta)
nf-co.re
Code and files for the main nf-core website.
ribotricer
A tool for accurately detecting actively translating ORFs from Ribo-seq data
scanpy-scripts
Scripts for using scanpy
scFlow
Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
scrublet
Detect doublets in single-cell RNA-seq data
showcase
Infrastructure as code implementation of the seqeralabs/showcase Workspace in Tower Cloud
templates
Document templates for open-source projects (README, CONTRIBUTING, GitHub templates)
test-datasets
Test data to be used for automated testing with the nf-core pipelines
training-material
A collection of Galaxy-related training material
UMI-tools
Tools for handling Unique Molecular Identifiers in NGS data sets