321 Open source projects that are alternatives of or similar to genoiser

find large indels (in the blind spot between GATK/freebayes and SV callers)

viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data

xHLA: Fast and accurate HLA typing from short read sequence data

JavaScript VisualizationTools

🍊 💫 Trim, circularise and orient long read bacterial genome assemblies

High-performance error correction for Illumina resequencing data

Loco: Localization Package for Nim Apps

Finds SNP sites from a multi-FASTA alignment file

ll - a more informative `ls`, based on `k`

An ultrafast memory-efficient short read aligner

🔬 BEDOPS: high-performance genomic feature operations

Tiny math expression evaluator library implemented in pure Nim

Phage-Host Interaction Search Tool

Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, etc.).

a pileup library that embraces the huge

A Nest-like intelligent thermostat implementation for the Raspberry Pi

Easy genetic ancestry predictions in Python

A DNA Sequence Alignment/Map (SAM) library for Clojure

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

cython + htslib == fast VCF and BCF processing

Population assignment analysis using R

Performant Pythonic GenomicRanges

A fully type safe, compile time only units library.

Nim Presentation Slides and Examples.

Fast large scale matrix visualization for the web.

Proof-of-concept seq-to-graph mapper and graph generator

Highly performant data storage in C++ for importing, querying and transforming variant data with C/C++/Java/Spark bindings. Used in gatk4.

Biopython Jupyter Notebook tutorial to characterize a small genome

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.

mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data

Nim package directory - documentation builder

simuG: a general-purpose genome simulator

Seven Bridges Genomics aligner/caller debugging and analysis tools

GeoGuessr browser plugin, hide Ads, Filters for StreetView and Mapillary for Chromium and Firefox

A hardcore livecoding system for realtime audio synth.

Genome-wide imputation pipeline

A WGS de novo assembler based on the FMD-index for large genomes

A filtering SOCKS proxy server and client library written in nim.

Immediate mode UI for Nim

Nim code formatter / linter / style checker

Haplotype VCF comparison tools

DriverPower

Official git repository for Biopython (originally converted from CVS)

Python package and CLI for whole-genome duplication related analyses

A toolkit to learn how to model and interpret regulatory sequence data using deep learning.

Collection of scripts for bacterial genomics

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

programs and scripts, mainly python, for analyses related to nucleic or protein sequences

Ultrafast de novo assembly for long noisy reads (though having no consensus step)

Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes

SDK for GPU accelerated genome assembly and analysis

Genomics Workflows on AWS

FlowCraft: a component-based pipeline composer for omics analysis using Nextflow. 🐳📦

Performs memory-efficient reservoir sampling on very large input files delimited by newlines

A One-Click System for Analyzing Loop-Resolution Hi-C Experiments

Find target sites for the miRNAs in genomic sequences

The GenePattern Server web application

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

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

Genome Annotation Without Nightmares