Purdue University

Genomedata is a format for efficient storage of multiple tracks of numeric data anchored to a genome. The format allows fast random access to hundreds of gigabytes of data, while retaining a small disk space footprint.

Genomepy is designed to provide a simple and straightforward way to download and use genomic data.

Reference-free profiling of polyploid genomes.

Genrich is a peak-caller for genomic enrichment assays (e.g. ChIP-seq, ATAC-seq). It analyzes alignment files generated following the assay and produces a file detailing peaks of significant enrichment.

GEOS Geometry Engine - Open Source is a C++ port of the Java Topology Suite JTS. As such, it aims to contain the complete functionality of JTS in C++. This includes all the OpenGIS Simple Features for SQL spatial predicate functions and spatial operators, as well as specific JTS enhanced topology functions.

GetOrganelle is a fast and versatile toolkit for accurate de novo assembly of organelle genomes

GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.

gfastats is a single fast and exhaustive tool for summary statistics and simultaneous fa (fasta, fastq, gfa [.gz]) genome assembly file manipulation. gfastats also allows seamless fasta<>fastq<>gfa[.gz] conversion. It has been tested in genomes even >100Gbp.

gfatools is a set of tools for manipulating sequence graphs in the GFA or the rGFA format. It has implemented parsing, subgraph and conversion to FASTA/BED.

Gffcompare is used to compare, merge, annotate and estimate accuracy of one or more GFF files.

Gffread is used to validate, filter, convert and perform various other operations on GFF files.

gffutils is a Python package for working with and manipulating the GFF and GTF format files typically used for genomic annotations.

An interpreter for the PostScript language and for PDF.

GimmeMotifs is a suite of motif tools, including a motif prediction pipeline for ChIP-seq experiments.

Git is a free and open source distributed version control system designed to handle everything from small to very large projects with speed and efficiency.

Glimmer is a system for finding genes in microbial DNA, especially the genomes of bacteria, archaea, and viruses.

Glimmerhmm is a new gene finder based on a Generalized Hidden Markov Model (GHMM).

Scalable gVCF merging and joint variant calling for population sequencing projects.

Gmap is a genomic mapping and alignment program for mRNA and EST sequences.