Long Read Sequencing Python Packages

dajin2

🔬 Genotyping tool for genome-edited samples using nanopore-targeted sequencing

deepchopper-cli

Genomic Language Model Mitigates Chimera Artifacts in Nanopore Direct RNA Sequencing

strkit

A short tandem repeat (STR) genotyping and analysis toolkit for long reads

deepchopper

Genomic Language Model Mitigates Chimera Artifacts in Nanopore Direct RNA Sequencing

stranger

Tool to annotate outfiles from ExpansionHunter and TRGT with the pathologic implications of the repeat

atarva

ATaRVa - Analysis of Tandem Repeat Variation

midsv

Python module to convert SAM to MIDSV format.

nanome-jax

NANOME (Nanopore methylation) pipeline developed by Li Lab at The Jackson Laboratory

deepconsensus

DeepConsensus uses gap-aware sequence transformers to correct errors in Pacific Biosciences (PacBio) Circular Consensus Sequencing (CCS) data.

ultra-bioinformatics

Long-read splice alignment with high accuracy

altanalyze3

AltAnalyze version 3 is a Python3 library to integrate and compare diverse RNA isoform datasets.

jaffatools

A Python toolkit for JAFFA fusion gene detection