Pinned Repositories
alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
AlleleCodes
Python script(s) for assigning allele codes under current PulseNet nomenclature system in BioNumerics but as a command-line executable without BioNumerics dependencies
ecoli_serotyping
In silico prediction of E. coli serotype
gencore
Generate duplex/single consensus reads to reduce sequencing noises and remove duplications
lr
A worse version of ls in Rust
ls-lisp
SNVPhyl_Nextflow
Nextflow version of SNVPhyl
VCFViz
A quick way to visualize VCF data in a html report
wordle-py
wordle on the terminal, I just want to play with creating solvers for it.
mikrokondo
A simple pipeline for bacterial assembly and quality control
mattheww95's Repositories
mattheww95/ecoli_serotyping
In silico prediction of E. coli serotype
mattheww95/ls-lisp
mattheww95/SNVPhyl_Nextflow
Nextflow version of SNVPhyl
mattheww95/alignment-and-variant-calling-tutorial
basic walk-throughs for alignment and variant calling from NGS sequencing data
mattheww95/AlleleCodes
Python script(s) for assigning allele codes under current PulseNet nomenclature system in BioNumerics but as a command-line executable without BioNumerics dependencies
mattheww95/biopython
Official git repository for Biopython (originally converted from CVS)
mattheww95/lr
A worse version of ls in Rust
mattheww95/wordle-py
wordle on the terminal, I just want to play with creating solvers for it.
mattheww95/bug_report
Minimal reproducible example of bug involving nested schemas
mattheww95/chewBBACA
BSR-Based Allele Calling Algorithm
mattheww95/codon
A high-performance, zero-overhead, extensible Python compiler using LLVM
mattheww95/datasets
Benchmark and toy datasets
mattheww95/GTDBSketching
Convert a GTDB download into a Mash Sketch
mattheww95/hatch
Modern, extensible Python project management
mattheww95/HMAS-QC-Pipeline2
an alternative pipeline without using mothur
mattheww95/iridanext-example-nf
mattheww95/leviosam2
Fast and accurate coordinate conversion between assemblies
mattheww95/LexicHash
A novel method for sequence similarity estimation
mattheww95/line-by-line
Evaluating line-reading performance
mattheww95/lobster
The Lobster Programming Language
mattheww95/mikrokondo_tests
Test data sets for mikrokondo
mattheww95/MLSTDists
alternative to cgmlst-dists for mlst distance calculatoin
mattheww95/nf-flu
Influenza genome analysis Nextflow workflow
mattheww95/nf-validation
Params validation plugin for Nextflow pipelines
mattheww95/PilonPolisher
Iterative polishing with Pilon
mattheww95/racon
Ultrafast consensus module for raw de novo genome assembly of long uncorrected reads
mattheww95/rasusa
Randomly subsample sequencing reads to a specified coverage
mattheww95/rustlings
:crab: Small exercises to get you used to reading and writing Rust code!
mattheww95/Sabres
A tool that scans VCF data for SARS-CoV-2 Antiviral Resistance
mattheww95/wtfpython
What the f*ck Python? 😱