matt-sd-watson
Programmer with LTRI. Currently: genomics and data science Previous: multi -omics
Toronto, ON, Canada
Pinned Repositories
pangolin
Software package for assigning SARS-CoV-2 genome sequences to global lineages.
nf-processes
modules for processing and analyzing single cell data using Nextflow
ACTINN
allennlp-reading-comprehension
beernanza
memory match tile app implemented using a Swing-based GUI and object oriented concepts
biostatistics_in_r
biostatistical workflows in R covering regression and classification models
FASTAfurious
:racing_car: Bundled utilities for manipulation and integration of FASTA files
nextflow_for_nextstrain
Parallelization of Nextstrain builds and parameter testing using Nextflow
spora
:mushroom: spora: Streamlined Phylogenomic Outbreak Report Analysis
ggtree
:christmas_tree:Visualization and annotation of phylogenetic trees
matt-sd-watson's Repositories
matt-sd-watson/FASTAfurious
:racing_car: Bundled utilities for manipulation and integration of FASTA files
matt-sd-watson/beernanza
memory match tile app implemented using a Swing-based GUI and object oriented concepts
matt-sd-watson/nextflow_for_nextstrain
Parallelization of Nextstrain builds and parameter testing using Nextflow
matt-sd-watson/spora
:mushroom: spora: Streamlined Phylogenomic Outbreak Report Analysis
matt-sd-watson/augur
Pipeline components for real-time phylodynamic analysis
matt-sd-watson/camlab-website
Hugo website for camlab Toronto
matt-sd-watson/civet3
matt-sd-watson/CopyscAT
Inferring CNV data from single cell ATAC seq
matt-sd-watson/cytoviewer
An interactive multi-channel image viewer for R
matt-sd-watson/dash-daq
Control components for Dash
matt-sd-watson/dash-extensions
The dash-extensions package is a collection of utility functions, syntax extensions, and Dash components that aim to improve the Dash development experience
matt-sd-watson/dash-uploader
The alternative upload component for python Dash applications.
matt-sd-watson/ggtree
:christmas_tree:Visualization and annotation of phylogenetic trees
matt-sd-watson/infercnv
Inferring CNV from Single-Cell RNA-Seq
matt-sd-watson/matt-sd-watson
matt-sd-watson/mitch
An R package for multi-dimensional pathway enrichment analysis
matt-sd-watson/MSDSHub
Hosts the website for MSDSHub.com
matt-sd-watson/ncov-tools
Small collection of tools for performing quality control on coronavirus sequencing data and genomes
matt-sd-watson/ncov_one_off
one off analyses for the ncov/COVID-19 project
matt-sd-watson/nextflow_misc
Miscellaneous of development pipelines for bioinformatics processes
matt-sd-watson/nf-processes
modules for processing and analyzing single cell data using Nextflow
matt-sd-watson/pangolin
Software package for assigning SARS-CoV-2 genome sequences to global lineages.
matt-sd-watson/pascrd
Programmatic Access to Single Cell Repositories for Downloading
matt-sd-watson/readimc
Python package for reading imaging mass cytometry (IMC) files
matt-sd-watson/scMatch
scMatch: a single-cell gene expression profile annotation tool using reference datasets
matt-sd-watson/scrnaseq
A single-cell RNAseq pipeline for 10X genomics data
matt-sd-watson/seurat
R toolkit for single cell genomics
matt-sd-watson/snp-dists
Pairwise SNP distance matrix from a FASTA sequence alignment
matt-sd-watson/steinbock
A toolkit for processing multiplexed tissue images
matt-sd-watson/vsn-pipelines
A repository of pipelines for single-cell data in Nextflow DSL2