A collection of scripts and notes related to genomics and bioinformatics

A tool for fetching nanopore fast5 files after filtering via demultiplexing, alignment, or other, to improve downstream processing efficiency

modPhred is a pipeline for detection of DNA/RNA modifications from raw ONT data

Subset of fast5 files contained in a fastq, BAM, or SAM file.

Low level bindings and wrapper for slow5lib, an alternative for ONT Nanopore sequencing FAST5 output

The first work to provide a comprehensive survey of a prominent set of algorithmic improvement and hardware acceleration efforts for the entire genome analysis pipeline used for the three most prominent sequencing data, short reads (Illumina), ultra-long reads (ONT), and accurate long reads (HiFi). Described in arXiv (2022) by Alser et al. https…

Wrapper to read fast5, slow5, blow5 and pod5 files.

Synchronise Nanopore reads with a server.

Bob Loblaw's Law Blog Applauds Porexplorer

Rust library to support interacting with Oxford Nanopore POD5 files

Wrapper to read fast5 and pod5 files.

Documentation for the https://github.com/JannesSP/read5 repository