447 Open source projects that are alternatives of or similar to Fgbio

Snakemake-based workflow for detecting structural variants in WGS data

Genomics Extension for SQLite

课题组每周研讨会

Single cell perturbation prediction

A lightweight immune repertoire browser

MOLGENIS - for scientific data: management, exploration, integration and analysis.

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

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

Estimation of per-individual inbreeding coefficients under a probabilistic framework

A curated list of awesome Bioinformatics libraries and software.

A full spaCy pipeline and models for scientific/biomedical documents.

Application for making ENCODE Blacklists

Estimate metagenomic coverage and sequence diversity

Post-analysis of immune repertoire sequencing data

Javascript full-stack framework for Big Data visualisation and analysis

Next generation sequencing reads de novo assembler.

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

Bioinformatics Workbook repository

A wrapper for the EnsEMBL REST API

dna2vec: Consistent vector representations of variable-length k-mers

Conda recipes for the bioconda channel.

Demonstrating best practices for bioinformatics command line tools

Lightweight Iterative Gene set Enrichment in R

Community-curated list of software packages and data resources for single-cell, including RNA-seq, ATAC-seq, etc.

highly-efficient & lightweight mutation signature matrix aggregation

SquiggleKit: A toolkit for manipulating nanopore signal data

DEPRECIATED! Please use nf-core/tools instead

APBS - software for biomolecular electrostatics and solvation

Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)

VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.

Estimation of pairwise distances under a probabilistic framework

The sources of the openSNP website

Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing

Antimicrobial Resistance Identification By Assembly

Tools and databases for analyzing HLA and VDJ genes.

Bayesian genotyper for structural variants

Aggregate results from bioinformatics analyses across many samples into a single report.

An efficient FASTQ manipulation suite

A plotly.js React component from Plotly 📈

TADbit is a complete Python library to deal with all steps to analyze, model and explore 3C-based data. With TADbit the user can map FASTQ files to obtain raw interaction binned matrices (Hi-C like matrices), normalize and correct interaction matrices, identify and compare the so-called Topologically Associating Domains (TADs), build 3D models from the interaction matrices, and finally, extract structural properties from the models. TADbit is complemented by TADkit for visualizing 3D models

Python and C++ code for reading and writing genomics data.

MrBayes is a program for Bayesian inference and model choice across a wide range of phylogenetic and evolutionary models. For documentation and downloading the program, please see the home page:

A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang

A fast whole-genome aligner based on de Bruijn graphs

A cross-platform, efficient and practical CSV/TSV toolkit in Golang

Provides access to complex Bioinformatics software (even BioLinux!) in just one command.

✏️ A versatile DNA sequence optimizer

Finding surprising needles (=genes) in haystacks (=single cell transcriptome data).

Robust and efficient workflows using a simple language agnostic approach

parallel fastq-dump wrapper

ECG classification programs based on ML/DL methods

A DSL for data-driven computational pipelines

Universal Transcript Archive: comprehensive genome-transcript alignments; multiple transcript sources, versions, and alignment methods; available as a docker image

Versatile open-source tool for microbiome analysis

Benchmarking programming languages/implementations for common tasks in Bioinformatics

Create regional association plots from GWAS or meta-analysis

GCP Essentials for Bioinformatics Researchers

Exact Tandem Repeat Finder (not a TRF replacement)

GeneValidator: Identify problems with predicted genes

🐙 KrakenUniq: Metagenomics classifier with unique k-mer counting for more specific results