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The Top 23 Long Reads Open Source Projects

Open source projects categorized as Long Reads
Categories > Long Reads
Nextdenovo ⭐ 306
Fast and accurate de novo assembler for long reads
most recent commit 9 months ago
Shasta ⭐ 269
[MOVED] Moved to paoloshasta/shasta. De novo assembly from Oxford Nanopore reads
most recent commit 2 years ago
Ngmlr ⭐ 230
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
most recent commit 3 years ago
Pepper ⭐ 216
PEPPER-Margin-DeepVariant
total releases 8most recent commit 8 months ago
Clair3 ⭐ 191
Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
most recent commit 5 months ago
Salsa ⭐ 153
SALSA: A tool to scaffold long read assemblies with Hi-C data
most recent commit 2 years ago
Bambu ⭐ 150
Reference-guided transcript discovery and quantification for long read RNA-Seq data
most recent commit 7 months ago
Long Read Pipelines ⭐ 108
Long read production pipelines
most recent commit 5 months ago
Brickyeditor ⭐ 103
WYSIWYG block editor jQuery plugin.
dependent packages 2total releases 4most recent commit 4 years agonpm brickyeditor} Downloads
Abpoa ⭐ 99
abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
total releases 28most recent commit 5 months ago
Pipeline Structural Variation ⭐ 87
Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
most recent commit 3 years ago
Sg Nex Data ⭐ 80
Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project
most recent commit 7 months ago
Taxprofiler ⭐ 78
Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
most recent commit 5 months ago
Dysgu ⭐ 75
Toolkit for calling structural variants using short or long reads
total releases 27most recent commit 8 months ago
Princess ⭐ 74
most recent commit a year ago
Links ⭐ 69
⛓Long Interval Nucleotide K-mer Scaffolder
most recent commit 7 months ago
Yacrd ⭐ 59
Yet Another Chimeric Read Detector
total releases 8most recent commit 2 years ago
Metacache ⭐ 49
memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping
most recent commit a year ago
Bella ⭐ 47
BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper
most recent commit 2 years ago
Minimap2 Rs ⭐ 46
Rust bindings to minimap2 library
dependent packages 1total releases 15most recent commit 7 months agocargo minimap2-sys} Downloads
Gala ⭐ 45
Long-reads Gap-free Chromosome-scale Assembler
most recent commit 2 years ago
Sneakysnake ⭐ 44
SneakySnake🐍 is the first and the only pre-alignment filtering algorithm that works efficiently and fast on modern CPU, FPGA, and GPU architectures. It greatly (by more than two orders of magnitude) expedites sequence alignment calculation for both short and long reads. Described in the Bioinformatics (2020) by Alser et al. https://arxiv.org/abs/1910.09020.
most recent commit a year ago
Dentist ⭐ 44
Close assembly gaps using long-reads at high accuracy.
total releases 13most recent commit a year ago
The 2 Most Depended On Long Reads Open Source Projects
Brickyeditor ⭐ 103
WYSIWYG block editor jQuery plugin.
dependent packages 2total releases 4latest release January 22, 2018most recent commit 4 years agonpm brickyeditor} Downloads
Minimap2 Rs ⭐ 46
Rust bindings to minimap2 library
dependent packages 1total releases 15latest release September 12, 2023most recent commit 7 months agocargo minimap2-sys} Downloads
The 10 Latest Releases In Long Reads Open Source Projects
Dysgu ⭐ 75
Toolkit for calling structural variants using short or long reads
total releases 27latest release October 18, 2023most recent commit 8 months ago
Minimap2 Rs ⭐ 46
Rust bindings to minimap2 library
dependent packages 1total releases 15latest release September 12, 2023most recent commit 7 months agocargo minimap2-sys} Downloads
Trackcluster ⭐ 9
An analysis pipeline for Nanopore direct-RNA sequencing
total releases 5latest release January 24, 2023most recent commit 7 months ago
Dentist ⭐ 44
Close assembly gaps using long-reads at high accuracy.
total releases 13latest release September 14, 2022most recent commit a year ago
Abpoa ⭐ 99
abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
total releases 28latest release March 15, 2022most recent commit 5 months ago
Swan_vis ⭐ 43
A Python library to visualize and analyze long-read transcriptomes
total releases 14latest release August 31, 2021most recent commit 7 months ago
Pepper ⭐ 216
PEPPER-Margin-DeepVariant
total releases 8latest release November 19, 2020most recent commit 8 months ago
Yacrd ⭐ 59
Yet Another Chimeric Read Detector
total releases 8latest release July 18, 2020most recent commit 2 years ago
Isocon ⭐ 9
Derives consensus sequences from a set of long noisy reads by clustering and error correction.
total releases 7latest release April 06, 2020most recent commit 3 years ago
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