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The Top 23 Sequencing Fastq Open Source Projects

Open source projects categorized as Sequencing Fastq
Categories > Fastq
Categories > Science > Sequencing
Fastp ⭐ 1,602
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging.
total releases 1most recent commit 6 months ago
Afterqc ⭐ 157
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
most recent commit 6 years ago
Genomics ⭐ 154
A collection of scripts and notes related to genomics and bioinformatics
most recent commit 2 years ago
Seq2science ⭐ 132
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
most recent commit 5 months ago
Ngscheckmate ⭐ 106
Software program for checking sample matching for NGS data
most recent commit 8 months ago
Seqfu2 ⭐ 96
🚀 seqfu - Sequece Fastx Utilities
most recent commit 4 months ago
Assembly Stats ⭐ 92
Get assembly statistics from FASTA and FASTQ files
most recent commit a year ago
Mcclintock ⭐ 83
Meta-pipeline to identify transposable element insertions using next generation sequencing data
most recent commit 3 months ago
Neat Genreads ⭐ 72
NEAT read simulation tools
most recent commit 3 years ago
Nanostat ⭐ 63
Create statistic summary of an Oxford Nanopore read dataset
total releases 28most recent commit a year ago
Opengene.jl ⭐ 61
(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia
most recent commit 2 years ago
Fastv ⭐ 56
An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infectious diseases, like COVID-19.
most recent commit 4 years ago
Pyflow Chipseq ⭐ 55
a snakemake pipeline to process ChIP-seq files from GEO or in-house
most recent commit 4 years ago
Poreplex ⭐ 51
A versatile sequenced read processor for nanopore direct RNA sequencing
total releases 7most recent commit 4 years ago
Falco ⭐ 50
A C++ drop-in replacement of FastQC to assess the quality of sequence read data
most recent commit 8 months ago
Fastaq ⭐ 45
Python3 scripts to manipulate FASTA and FASTQ files
dependent packages 7total releases 21most recent commit 2 years agopypi pyfastaq} Downloads
Ngspeciesid ⭐ 41
Reference-free clustering and consensus forming of long-read amplicon sequencing
total releases 19most recent commit 6 months ago
Assembly_improvement ⭐ 39
Improve the quality of a denovo assembly by scaffolding and gap filling
most recent commit 4 years ago
Fastq_utils ⭐ 29
Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
most recent commit a year ago
Qc3 ⭐ 27
QC3, a quality control tool designed for DNA sequencing data for raw data, alignment, and variant calling.
most recent commit 8 years ago
Natrix ⭐ 21
Open-source bioinformatics pipeline for the preprocessing of raw sequencing data.
most recent commit 2 years ago
Defq ⭐ 20
Ultra-fast Multi-threaded FASTQ Demultiplexing
most recent commit 6 years ago
Assembler Components ⭐ 20
Components of genome sequence assembly tools
most recent commit 2 years ago
The 3 Most Depended On Sequencing Fastq Open Source Projects
Fastaq ⭐ 45
Python3 scripts to manipulate FASTA and FASTQ files
dependent packages 7total releases 21latest release February 19, 2018most recent commit 2 years agopypi pyfastaq} Downloads
Nanoget ⭐ 10
Functions to extract information from Oxford Nanopore sequencing data and alignments
dependent packages 2total releases 70latest release September 19, 2023most recent commit 7 months agopypi nanoget} Downloads
Itsxpress ⭐ 6
Software to trim the ITS region of FASTQ sequences for amplicon sequencing analysis
dependent packages 1total releases 18latest release May 25, 2023most recent commit 4 months agopypi itsxpress} Downloads
The 10 Latest Releases In Sequencing Fastq Open Source Projects
Nanoget ⭐ 10
Functions to extract information from Oxford Nanopore sequencing data and alignments
dependent packages 2total releases 70latest release September 19, 2023most recent commit 7 months agopypi nanoget} Downloads
Itsxpress ⭐ 6
Software to trim the ITS region of FASTQ sequences for amplicon sequencing analysis
dependent packages 1total releases 18latest release May 25, 2023most recent commit 4 months agopypi itsxpress} Downloads
Fastp ⭐ 1,602
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging.
total releases 1latest release December 15, 2021most recent commit 6 months ago
Ngspeciesid ⭐ 41
Reference-free clustering and consensus forming of long-read amplicon sequencing
total releases 19latest release December 07, 2021most recent commit 6 months ago
Nanostat ⭐ 63
Create statistic summary of an Oxford Nanopore read dataset
total releases 28latest release November 29, 2021most recent commit a year ago
Bio Tradis ⭐ 15
A set of tools to analyse the output from TraDIS analyses
total releases 14latest release December 04, 2019most recent commit 9 months ago
Poreplex ⭐ 51
A versatile sequenced read processor for nanopore direct RNA sequencing
total releases 7latest release October 18, 2019most recent commit 4 years ago
Fastaq ⭐ 45
Python3 scripts to manipulate FASTA and FASTQ files
dependent packages 7total releases 21latest release February 19, 2018most recent commit 2 years agopypi pyfastaq} Downloads
Enasearch ⭐ 15
A Python library for interacting with ENA's API
total releases 9latest release October 22, 2017most recent commit 4 years ago
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