624 Open source projects that are alternatives of or similar to Afterqc

An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)

Data intensive science for everyone.

Official code repository for GATK versions 4 and up

HTS-compatible wrapper for IgBlast V-(D)-J mapping tool

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

UGENE is free open-source cross-platform bioinformatics software

A package for designing compact and comprehensive capture probe sets.

Generate duplex/single consensus reads to reduce sequencing noises and remove duplications

Analysis pipelines for sequencing data

A repository for setting up a RNAseq workflow

Rapid large-scale prokaryote pan genome analysis

A robust model for quantitative comparison of ChIP-Seq data sets.

Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.

R package for analyzing single-cell RNA-seq data

Structural variant toolkit for VCFs

An NGS read trimming tool that is specific, sensitive, and speedy. (production)

SaffronTree: Reference free rapid phylogenetic tree construction from raw read data

Method to optimally select samples for validation and resequencing

Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.

Intuitive local web frontend for the BLAST bioinformatics tool

(No maintenance) OpenGene, core libraries for NGS data analysis and bioinformatics in Julia

Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.

Project metadata manager for PEPs in Python

Python library to parse, format, validate, normalize, and map sequence variants. `pip install hgvs`

Tools to process and analyze deep sequencing data.

Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation

highly-efficient & lightweight mutation signature matrix aggregation

(No maintenance) Detect gene fusion directly from raw fastq files

Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI

A collection of publications on comparison of high-throughput sequencing technologies.

Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.

A Java API for high-throughput sequencing data (HTS) formats.

C library for high-throughput sequencing data formats

Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins

Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform

My bioinfo toolbox

An interactive web tool for quality control of DNA sequencing data

Genomics Extension for SQLite

Collection of scripts for bacterial genomics

A tool to circularize genome assemblies

Assembling the cause of phenotypes and genotypes from NGS data

Java utilities for Bioinformatics

NGLess: NGS with less work

A simplified pipeline for ctDNA sequencing data analysis

A collection of scripts and notes related to genomics and bioinformatics

Antimicrobial Resistance Identification By Assembly

Tools for working with genomic and high throughput sequencing data.

A comprehensive library for computational molecular biology

MiXCR is a universal software for fast and accurate extraction of T- and B- cell receptor repertoires from any type of sequencing data. Free for academic use only.

nim wrapper for htslib for parsing genomics data files

Fast multi-line FASTA/Q reader in several programming languages

Fast Reference-Guided Scaffolding of Genome Assembly Contigs. RagTag, the successor to RaGOO, is now available here: https://github.com/malonge/RagTag

A Vue.js component for filterable and paginated tables.

Simple simulation of single-cell RNA sequencing data

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

Protein-Ligand Interaction Profiler - Analyze and visualize non-covalent protein-ligand interactions in PDB files according to 📝 Salentin et al. (2015), https://www.doi.org/10.1093/nar/gkv315

Cute Error Pages for your nginx web server

The sources of the openSNP website

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database