423 Open source projects that are alternatives of or similar to manhattan_generator

A tool to plot significant regions of GWAS

Forward-time simulation in Python using fwdpp

R package: Simulate Expression data from igraph network using mvtnorm (CRAN; JOSS)

Digital Expression Explorer 2 (DEE2): a repository of uniformly processed RNA-seq data

Genome-wide imputation pipeline

Resource of human chromosome schematics & images

A curated list of awesome bioinformatics software.

Genome Annotation Without Nightmares

DriverPower

simuG: a general-purpose genome simulator

Easy genetic ancestry predictions in Python

Plot streaming data from stdin to a tty terminal

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A bioinformatics API and web-app to integrate multi-omics datasets & interface with public databases.

Visual exploration of clustered data.

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Consensus calling (or "reference assisted assembly"), chiefly of ancient mitochondria

Python package and CLI for whole-genome duplication related analyses

A PHP Library for using GnuPlot

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

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OpenGL based 2D Plotting Library for Java using AWT and LWJGL

DSL and C Library to generate SVG Plot

A tool for fast and accurate summarizing of variant calling format (VCF) files

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Large genome reassembly based on Hi-C data, continuation of GRAAL

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

ntHash implementation in Rust

Biopython Jupyter Notebook tutorial to characterize a small genome

The GenePattern Server web application

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High-performance error correction for Illumina resequencing data

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

GA4GH Variation Representation Python Implementation

Data visualization tool for wikis evolution

distfit is a python library for probability density fitting.

A Snakemake workflow to process single samples or cohorts of paired-end sequencing data (WGS or WES) using trim galore/bwa/GATK4/parabricks.

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

Implementation of the Pairwise Sequentially Markovian Coalescent (PSMC) model

Population assignment analysis using R

CUT&RUN and CUT&Tag data processing and analysis

multigraph: Plot and Manipulate Multigraphs in R

LRSDAY: Long-read Sequencing Data Analysis for Yeasts

Genomics Workflows on AWS

simple viewer for variant call format using htslib

Find target sites for the miRNAs in genomic sequences

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

CellRank for directed single-cell fate mapping

Implementation of the Apriori and Eclat algorithms, two of the best-known basic algorithms for mining frequent item sets in a set of transactions, implementation in Python.

Rare variant test software for next generation sequencing data

Go-Notebook is inspired by Jupyter Project (link) in order to document Golang code.

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

MATLAB Toolbox for Handling 2D and 3D FEM Meshes

A secure encryption tool for genomic data

Web component implementation of a Gantt chart.

Glimma R package

A deep learning based bioinformatics project on epigenetics in Type 2 Diabetes.