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mavis

Version: 1.6.4

MAVIS is a pipeline to merge and validate input from different structural variant callers into a single report. The pipeline consists five of main ste ...

Last updated: February 12, 2018

Tardis

Version: 0.3

Tardis is a toolkit for Automated and Rapid DIscovery of Structural variants. ...

Last updated: February 2, 2018

Cutadapt

Version: 1.15

cutadapt removes adapter sequences from high-throughput sequencing data. This is usually necessary when the read length of the sequencing machine is l ...

Last updated: February 2, 2018

CARNAC

Clustering coefficient-based Acquisition of RNA Communities in Long Reads ...

Last updated: January 31, 2018

hlareporter

Last updated: January 29, 2018

ACEseq

Last updated: January 29, 2018

Pacbio_variant_caller

Structural variant (SV) and indel caller for PacBio reads based on methods from Chaisson et al. 2014. ...

Last updated: January 24, 2018

Supernova

Version: 2.0.0

supernova helps you use novaclient (and other executables) with multiple environments the easy way. ...

Last updated: January 18, 2018

FastME

Version: 2.1.5.2

FastME provides distance algorithms to infer phylogenies. FastME is based on balanced minimum evolution, which is the very principle of NJ. FastME imp ...

Last updated: January 17, 2018

HTSeq

Version: 0.9.1

A framework to process and analyze data from high-throughput sequencing (HTS) assays. ...

Last updated: January 16, 2018

LINKS

Version: 1.8.5

LINKS is a genomics application for scaffolding genome assemblies with long reads, such as those produced by Oxford Nanopore Technologies Ltd. It can ...

Last updated: January 4, 2018

Openbabel

Last updated: December 10, 2017

Guide

Last updated: December 5, 2017

ensemble-api

Last updated: November 3, 2017

Lancet

Version: 1.0.1

Lancet is a somatic variant caller (SNVs and indels) for short read data. Lancet uses a localized micro-assembly strategy to detect somatic mutation w ...

Last updated: October 27, 2017

Manta

Version: 1.2.1

Manta calls structural variants (SVs) and indels from mapped paired-end sequencing reads. It is optimized for analysis of germline variation in small ...

Last updated: October 16, 2017

BatVI

Version: 1.02

BatVI is a fast and sensitive method to determine viral integrations. We have benchmarked BatVI with existing methods and the results are given below. ...

Last updated: October 11, 2017

OptiType

Version: 1.3.1

OptiType is a novel HLA genotyping algorithm based on integer linear programming, capable of producing accurate 4-digit HLA genotyping predictions fro ...

Last updated: October 6, 2017

MultiQC

Version: 1.3

MultiQC is a tool to aggregate bioinformatics results across many samples into a single report. It is written in Python and contains modules for a num ...

Last updated: October 4, 2017

Isoseq-browser

Iso-Seq Browser (ISB) is an interactive visual analytics tool for long-read RNA sequencing data produced by Pacific Biosciences isoform sequencing (Is ...

Last updated: October 3, 2017

VEP

Version: 80

This tool allows you to input coordinates of any alleles you have identified, and determine the effect on relevant Ensembl transcripts and proteins. ...

Last updated: September 22, 2017

SNPhylo

Version: 20140701

A pipeline to generate a phylogenetic tree from huge SNP data. ...

Last updated: September 15, 2017

RTG-Tools

Version: 3.8.3

RTG Tools includes several useful utilities for dealing with VCF files and sequence data, but probably the most interesting is the vcfeval command whi ...

Last updated: September 7, 2017

STAR-Fusion

Version: 1.1.0

STAR-Fusion is a component of the Trinity Cancer Transcriptome Analysis Toolkit (CTAT). STAR-Fusion uses the STAR aligner to identify candidate fusion ...

Last updated: August 25, 2017

Scrappie

Version: 1.0.1

Scrappie is a technology demonstrator for the Oxford Nanopore Research Algorithms group. ...

Last updated: August 23, 2017