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Search results for java genome
genome
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71 search results found
Gridss
⭐
212
GRIDSS: the Genomic Rearrangement IDentification Software Suite
Artemis
⭐
191
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
Asciigenome
⭐
188
Text Only Genome Viewer!
Ngb
⭐
151
New Genome Browser (NGB) - a Web - based NGS data viewer with unique Structural Variations (SVs) visualization capabilities, high performance, scalability, and cloud data support
Mcscanx
⭐
135
MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
Genomewarp
⭐
96
GenomeWarp translates genetic variants from one genome assembly version to another.
Minced
⭐
80
Mining CRISPRs in Environmental Datasets
Genome Nexus
⭐
38
Backend server for Genome Nexus
Crossstitch
⭐
35
Code for phasing SVs with SNPs
Depict
⭐
34
DEPICT code, instructions and an example
Cgview
⭐
30
CGView is a Java package for generating high-quality, zoomable maps of circular genomes.
Mutserve
⭐
29
mtDNA Variant Caller
Medusa
⭐
25
A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.
Mga
⭐
24
The original version of MGA has been archived - please see https://github.com/crukci-bioinformatics/mga2 instead.
Varnote
⭐
23
Fast and scalable variant annotation tool
Mageri
⭐
19
MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers
Symap
⭐
17
Synteny Mapping and Analysis Program
Genomeflow
⭐
16
GenomeFlow: A Graphical Tool for Modeling and Analyzing 3D Genome Structure
Csbfinder
⭐
15
A Java Desktop application with a graphical user interface for the discovery of colinear syntenic blocks across thousands microbial genomes
Pantools
⭐
15
PanTools
Argon
⭐
15
Fast, whole-genome simulation of the discrete time Wright-Fisher process
Tiger
⭐
13
Toolkits Integrated for Genetic and Evolutionary Research
Vigor4
⭐
13
VIGOR4
Tappas
⭐
13
This repository contains the source code for the tappAS application. See README for details.
Chia Pet_tool_v3
⭐
13
ChIA-PET, HiChIP, PLAC-Seq data analysis, with linker detection, linker filter, or restriction process for HiChIP, mapping, call cluster and visulization
Adamajava
⭐
13
Bg7
⭐
13
bacterial genome annotation system
Secram
⭐
13
A library for compressing, encrypting, and querying alignment data.
Ebi Metagenomics
⭐
12
Automatically exported from code.google.com/p/ebi-metagenomics
Hadoopcnv
⭐
12
HadoopCNV is a MapReduce-based copy number variation caller for genome sequencing data
Bacnet
⭐
12
BACNET is a Java based platform to develop website for multi-omics analysis
Hydroneat
⭐
12
Implementation of "Evolving Neural Networks through Augmenting Topologies" in java
Gnomex
⭐
11
A genomic LIMS and data repository.
Crisprviz
⭐
11
A CRISPR repeat|spacer analysis tool
Seal
⭐
11
SEquence ALignment evaluation suite
Wtchg Rg
⭐
10
Reliable Genome project
Sequnwinder
⭐
8
SeqUnwinder: a platform for deconvolving motifs associated with genomic labels
Papst
⭐
8
A tool for Chip-seq analysis.
Genecrypt
⭐
8
GeneCrypt
Data Structures Algorithms
⭐
8
Data Structures and Algorithms specialization by UC San Diego & Higher School of Economics
Sketching
⭐
8
Analyzing sketching and sampling approaches for fast and accurate read classification
Fusim
⭐
8
a software tool for simulating fusion transcripts
Cloudkeeper
⭐
7
DSL and runtime system for data flows in the JVM
Genome Sequencing
⭐
7
Assembled Phi-X174 genome using Overlap Graph, Kmer Composition and De-Bruijn Graph.
Gatk Ui
⭐
7
Graphical Interface for the Genome Analysis Toolkit (GATK)
Agr_schemas
⭐
7
A repository of JSON schemas for incorporating data into the Alliance of Genome Resources.
Yoc
⭐
7
YOC is a whole genome alignment tool designed for collinear genomes.
Ipat
⭐
7
iPat allows you to perform GWAS and GS with drags and clicks!
Hygene
⭐
7
🧬 A multiple-genome graph visualizer for the JVM
Chexmix
⭐
7
ChExMix: the ChIP-exo mixture model
Genome Nexus Annotation Pipeline
⭐
7
Library and tool for annotating MAF files using Genome Nexus Webserver API
Brig
⭐
7
BRIG is a cross-platform (Windows/Mac/Unix) application that can display circular comparisons between a large number of genomes, with a focus on handling genome assembly data.
Circularmapper
⭐
6
A method to improve mappings on circular genomes, using the BWA mapper
Mea
⭐
6
Igvdesktopr
⭐
6
a simple R interface to the igv, a java program for viewing genome tracks
Neuralnetwork Plays Pong
⭐
6
A Neural Network trained using a genetic algorithm learns how to play a clone of Atari Pong.
Coalre
⭐
6
Beast2 implementation of the coalescent with reassortment
Genomeartist
⭐
6
Genome ARTIST (ARtificial Transposon Insertion Site Tracker)
Irisas
⭐
6
Integrated region-based variants synchronization and Annotation for different inbreeding lines
Seqcode Core
⭐
6
SeqCode: Java code for the analysis of high-throughput sequencing data
Vcf2diploid
⭐
6
personal genome constructor
Asdpex
⭐
6
Personal Genome Client
⭐
6
Java client for the 23andMe Personal Genome API.
Simulated Evolution
⭐
5
Artificial Life Simulation of Bacteria Motion depending on DNA
Compsra
⭐
5
COMPSRA: a COMprehensive Platform for Small RNA-Seq data Analysis
Varan Gie
⭐
5
VARAN-GIE extends Broad's popular genome browser IGV with functionality to edit, annotate and merge genomic interval sets
Mauve
⭐
5
A genome alignment and visualization system
Basespace Igv
⭐
5
BaseSpace Version of IGV
Pandelos
⭐
5
A dictionary-based method for pan-genomic contents discovery.
Mogen
⭐
5
The software for modeling the 3D structure of a genome using Hi-C chromosome conformation capturing data
Chia Pet_tool
⭐
5
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