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admin-training

Galaxy Admin Training

ags_conda_recipes

A tutorial (+ build recipes) describing how to use conda for C, C++, and python package management

aperture

Alignment-free detection of structural variations and viral integrations in circulating tumor DNA

apt.oncoscan.2.4.0

Affymetrix OncoScan / OncoScan_CNV processing using apt-copynumber-onco-ssa (2.4.0)

argparse2tool

transparently build CWL and Galaxy XML tool definitions for any script that uses argparse

arima-sv-pipeline

arriba

Fast and accurate gene fusion detection from RNA-Seq data

ascat

ASCAT copy number R package

ascatngs

Somatic copy number analysis using WGS paired end wholegenome sequencing

bafextract

base-editor-screen-analysis

Analysis of screening data from base editor screens

bioblend

A Python library for interacting with Galaxy and CloudMan API

bioconda-recipes

Conda recipes for the bioconda channel.

casper

cicero

CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.

cnvkit

Copy number variant detection from targeted DNA sequencing

comparetranscriptome

repository of scripts for comparative transcriptome analysis

container_camp_workshop_2019

CyVerse Container Camp 2019

copynumber_oncoscan

Data processing and analysis of genomic copy number data

counttofpkm

Convert Counts to Fragments per Kilobase of Transcript per Million (FPKM)

databaseapp

DataBaseApp

deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

delfi_scripts

docker-galaxy-stable

:whale::bar_chart::books: Docker Images tracking the stable Galaxy releases.

docker_pal2nal

docker_pal2nal_cwl

docker_pal2nal_nextflow

docker_pal2nal_snakemake

docker_pdaug

drop

Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders