Long read based human genomic structural variation detection with cuteSV

🌈Scaffold genome sequence assemblies using linked or long read sequencing data

Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads

SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes. Also, it supports both short- and long-read data.

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

rMETL - realignment-based Mobile Element insertion detection Tool for Long read

rMETL - realignment-based Mobile Element insertion detection Tool for Long read

Pipeline to provide high accuracy single molecule consensus sequences from PacBio data using unique molecular identifiers (UMIs).

The `pacmill` python package is a bioinformatics pipeline that is developed to process microbial 16S amplicon sequencing data and produce PDF reports detailing taxonomical assignments along with other statistics.

A workflow for processing CCS reads of AMF to ASVs using DADA2

Hormiphora californensis genome annotation and supplemental materials related to the genome assembly.

A set of tootkit for dealing with COI amplicons using Pacbio sequencing platform

pacbiohifi read analyzer using recursion

a streamlit application for graphical analyisis of pacbiohifi reads

awk utilites for anlyzing pacbiohifi genomes and reads

profiling pacbiokmers and filtering pacbio kmers

extracting specific motifs from pacbio and oxford nanopore long reads.

kmer profile for pacbiohifi reads in julia language

De novo repeat inference from long reads

SMP: A Salmonella Methylation analysis Pipeline