pacbio
There are 115 repositories under pacbio topic.
fritzsedlazeck/Sniffles
Structural variation caller using third generation sequencing
chhylp123/hifiasm
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
ruanjue/wtdbg2
Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly
Nextomics/NextDenovo
Fast and accurate de novo assembler for long reads
philres/ngmlr
NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on reads that span structural variations
chanzuckerberg/shasta
[MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads
marbl/Winnowmap
Long read / genome alignment software
HKU-BAL/Clair3
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
PacificBiosciences/IsoSeq
Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
nf-core/ampliseq
Amplicon sequencing analysis workflow using DADA2 and QIIME2
Genetalks/gtz
A high performance and compression ratio compressor for genomic data, powered by GTXLab of Genetalks.
ablab/IsoQuant
Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
sequana/sequana
Sequana: a set of Snakemake NGS pipelines
mortazavilab/TALON
Technology agnostic long read analysis pipeline for transcriptomes
ruanjue/smartdenovo
Ultra-fast de novo assembler using long noisy reads
PacificBiosciences/ccs
CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)
parklab/xTea
Comprehensive TE insertion identification with WGS/WES data from multiple sequencing technics
adigenova/wengan
An accurate and ultra-fast hybrid genome assembler
HKU-BAL/ClairS
ClairS - a deep-learning method for long-read somatic small variant calling
ganlab/GALA
Long-reads Gap-free Chromosome-scale Assembler
vpc-ccg/haslr
A fast tool for hybrid genome assembly of long and short reads
lfaino/LoReAn
Long Reads Annotation pipeline
mortazavilab/TranscriptClean
Correct mismatches, microindels, and noncanonical splice junctions in long reads that have been mapped to the genome
PacificBiosciences/barcoding
Lima - Demultiplex Barcoded PacBio Samples
fmalmeida/MpGAP
Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
mortazavilab/swan_vis
A Python library to visualize and analyze long-read transcriptomes
HKU-BAL/ClairS-TO
ClairS-TO - a deep-learning method for tumor-only somatic variant calling
a-ludi/dentist
Close assembly gaps using long-reads at high accuracy.
vpc-ccg/lordfast
Sensitive and Fast Alignment Search Tool for Long Read sequencing Data.
andrewjpage/tiptoft
Predict plasmids from uncorrected long read data
Serka-M/mmlong2
Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes
bpucker/MGSE
Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.
anuradhawick/LRBinner
LRBinner is a long-read binning tool published in WABI 2021 proceedings and AMB.
fmalmeida/ngs-preprocess
A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
MatthiasLienhard/isotools
IsoTools is a python module for Long Read Transcriptome Sequencing (LRTS) analysis.
Nazeeefa/awesome-sequencing-tech-papers
A collection of publications on comparison of high-throughput sequencing technologies.