Top 14 pacbio open source projects

Predict plasmids from uncorrected long read data

✭ 27

python TeX Dockerfile bioinformatics research nanopore genomics pathogen bioinformatics-pipeline pacbio global-health kmer oxford-nanopore plasmid infectious-diseases long-reads uncorrected plasmidfinder

ccs

CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)

✭ 79

machine-learning bioinformatics consensus pacbio variant-calling ccs

fast-sg

Fast-SG: An alignment-free algorithm for ultrafast scaffolding graph construction from short or long reads.

✭ 22

C++perl shell Makefile awk nanopore pacbio scaffolding illumina genome-assembly hybrid-genome-assembly alignment-free-algorithm

IsoQuant

Reference-based transcript discovery from long RNA read

✭ 26

python bioinformatics rna-seq nanopore ngs pacbio transcriptomics

dentist

Close assembly gaps using long-reads at high accuracy.

✭ 39

d shell python docker bioinformatics snakemake cluster singularity dub pacbio genome-assembly daligner long-reads gap-filling close-assembly-gaps damapper

Winnowmap

Long read / genome alignment software

✭ 151

c C++Makefile perl shell python nanopore pacbio genome-analysis

swan vis

A Python library to visualize and analyze long-read transcriptomes

✭ 35

Jupyter Notebook python Roff bioinformatics long-read pacbio transcriptome oxford-nanopore pacbio-iso-seq

wengan

An accurate and ultra-fast hybrid genome assembler

✭ 81

perl nanopore pacbio hybrid illumina genome-assembler

minorseq

Minor Variant Calling and Phasing Tools

✭ 15

statistics next-generation-sequencing haplotypes long-read pacbio minor-variant phasing drug-resistance

ngs-preprocess

A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies

✭ 22

Nextflow Dockerfile workflow bioinformatics pipeline reproducible-research ngs reproducible-science pacbio illumina nanopack trimgalore ngs-preprocess bax2bam porechop pacbio-ccs

haslr

A fast tool for hybrid genome assembly of long and short reads

✭ 68

C++python c Makefile bioinformatics nanopore genomics pacbio genome-assembly long-reads hybrid-assembly

CliqueSNV

No description or website provided.

✭ 13

java ngs haplotypes quasispecies pacbio illumina

TALON

Technology agnostic long read analysis pipeline for transcriptomes

✭ 96

python r Makefile pacbio transcriptome oxford-nanopore transcript-quantification

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.

✭ 22

python genomics genome ngs plants pacbio illumina genome-assembly read-mapping ont nanopore-sequencing genome-size-estimation

1-14 of 14 pacbio projects