A SingleCell RNASeq pre-processing snakemake workflow

Reference genome resource manager

Numerical Encoding for Human Genetic Variants

Serves a web interface and RESTful API for reference genome assets.

An ultrafast and highly sensitive Next-Generation Sequencing (NGS) read mapper and methylation extractor.

Explore eukaryotic genome composition and organization with iLoci

🔪⛓️ Repair nanopore assemblies using related genome(s)

Telomere-2-Telomere Genome from Saudi Arabia

R tools to mine & craft somatic mutations from cancer genomes

Get Started with DNA Sequencing working with .FastQ and .FastA file formats and performing Pattern Matching Algorithms (Exact & Approximate).

A Python object for standardized reference genome assets.

Jonah Crab, once considered bycatch in the lobster industry, are now one of the most valuable fisheries in Massachusetts. A chromosome-level reference genome was generated to enable lcWGS population structure assessment

Repository including scripts and workflows for "Investigating the impact of reference assembly choice on genomic analyses in a cattle breed"

Calling SNPs using TASSEL GBS V2 pipeline for ponderosa pine using the reference genome of loblolly pine

A streamlined pipeline for germline variant calling on chromosome 11 using GATK. This repository includes workflows for data preprocessing, variant discovery, and annotation, with a focus on understanding genetic variations linked to disease-associated genes.

Create required reference genome index files for WGS data analysis

Updated Reference Genome Sequence and Annotation of Mycobacterium bovis AF2122/97

Analysis documentation for part of the reference genome assembly of the humble guinea pig. Oxford Nanopore Technologies (ONT) pore-c data.

probability emitting pangenome graphs