Specifications for output files from MinKNOW, dorado and others

MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data

A program for assessing the T2T genome continuity and completeness

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

genetic variant expressions, annotation, and filtering for great good.

using all the bits for echt rapid variant annotation and filtering

Rapid-CNS2 Nextflow analysis pipeline

Neuropathology Heidelberg Rapid-CNS2 pipeline (bash + docker)

Sturgeon is a CNS neural network classifier

simplified cellranger for long-read data

k-mer based assembly evaluation

small R script to provide quick annotation and gene lists for series of IlmnID's (450k probes)

Copy number caller for long read data including SNV utilization

A Python script to generate markdown tables for Magic: The Gathering cards using the Scryfall API.

MTG Card Markdown Toolkit - a VSCode extension to grab card image and information for markdown documents.

HERRO is a highly-accurate, haplotype-aware, deep-learning tool for error correction of Nanopore R10.4.1 or R9.4.1 reads (read length of >= 10 kbps is recommended).

This script generates "baited" sequences from across a provided reference to search for them in fastq file(s)

MethPhaser: methylation-based haplotype phasing of human genomes

Estimating repeat spectra and genome length from low-coverage genome skims

Powerful system-level package manager for Linux, macOS and Windows written in Rust – building on top of the Conda ecosystem.

Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and Oxford Nanopore ultra-long reads.

Tool for globally phasing diploid assembly graphs with orthogonal data

Single cell Nanopore sequencing data for Genotype and Phenotype

Single Cell Long Read is a suite of tools dedicated to Cell barcode / UMI assignment and analysis of highly multiplexed single cell Nanopore long read sequencing data.

Biochemical-free enrichment or depletion of RNA classes in real-time during direct RNA sequencing

ClairS - a deep-learning method for long-read somatic small variant calling

Run applications through VPN tunnels with temporary network namespaces

Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project