George Bouras's repositories
plassembler
Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
coatofarms
ONT Long-read 16S Snakemake pipeline using Emu
Useful_Scripts
Collection of Useful Scripts
megapharokka
A fork of Pharokka to handle enVhogs
Nanopore_Bacterial_Assembly_Pipeline
Pipeline to assemble many bacterial assemblies from Nanopore data
taxanalyser
Snakemake and Snaketool pipeline to taxonomically profile ONT long read metagenomics data
WGS_TCGA_Kraken_Pipeline
Pipeline to Extract Contaminant Reads from TCGA WGS Datasets
NanoReceptor
Program to infer IG and TRA quantities from Long Read RNA-Seq Data
single_marker_gene_microbiome_analysis
Repository to hold analysis for single marker genes in HNSC Microbiome
Acanthophis
A comprehensive, opinionated plant variant calling pipeline in Snakemake
bioconda-recipes
Conda recipes for the bioconda channel.
CRS_Saureus_Evolutionary_Landscape
Repository to Hold Code base for 'The Intra-Host Evolutionary Landscape And Pathoadaptation Of Persistent Staphylococcus aureus In Chronic Rhinosinusitis' Paper
depth_vs_polishing_analysis
Repository to hold code and data for the How low can you go? Short-read polishing of Oxford Nanopore bacterial genome assemblies manuscript
giantpandrna
ONT Long-read cDNA quanitification pipeline using Bambu
hafeZ
A tool for identifying active prophage elements through read mapping
hybracter_benchmarking
Benchmarking Pipeline for Hybracter
Koverage
Quickly get coverage statistics given reads and an assembly
Phynteny
Predict the function of phage hypothetical proteins using an LSTM model trained with Phage Synteny
plassembler_simulation_benchmarking
Benchmarking and Simulation Scripts for Plassembler
ProstT5
Bilingual Language Model for Protein Sequence and Structure
S_Aureus_Analysis_Pipeline
Analysis of S Aureus WGS Isolates
S_Aureus_Methylation
Pipeline to Detect S Aureus Methylation
spae
NEW!!! Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!