Research Resource Discovery

Based on Ubuntu 18_04 with: R 3.4.4 RStudio server 1.2.1335 NCBI blast 2.6.0 2.6.0

This image provides a platform for Brendel Group RAMOSE workflows for computational genomics. Our RAMOSE philosophy and promise: we take every effort to design our workflows such that a user can generate reproducible, accurate, and meaningful results; our software is open (source), scalable, and easy to use (so that a typical genome laboratory team should be able to run it). And, of course, our software should be ramose (having many branches; see also the ramosa pathway in grass genomics ...) - it is yours to use, modify, improve, enhance, ...

This image provides a platform for Brendel Group RAMOSE workflows for computational genomics. Our RAMOSE philosophy and promise: we take every effort to design our workflows such that a user can generate reproducible, accurate, and meaningful results; our software is open (source), scalable, and easy to use (so that a typical genome laboratory team should be able to run it). And, of course, our software should be ramose (having many branches; see also the ramosa pathway in grass genomics ...) - it is yours to use, modify, improve, enhance, ...

Workflow for collecting and visualizing data from a bioacoustic recording device to full visualization of R spectrograms in a Drupal website.

Workflow for collecting and visualizing data from a bioacoustic recording device to full visualization of R spectrograms in a Drupal website. Interacts with Frog Call Analysis image to get predictions from Random Forest Classifier

HALF of workflow for collecting and visualizing data from a bioacoustic recording device to full visualization of R spectrograms in a Drupal website. *****Intermittent image to check for security holes.

Workflow for collecting and visualizing data from a bioacoustic recording device to full visualization of R spectrograms in a Drupal website. Interacts with Frog Call Analysis image to get predictions from Random Forest Classifier

Workflow for collecting and visualizing data from a bioacoustic recording device to full visualization of R spectrograms in a Drupal website. Interacts with Frog Call Analysis image to get predictions from Random Forest Classifier

R+ Bioconductor plus docker and singularity

Bioconductor resources for version 3.7, R 3.5 in Ubunto

Includes CERN ROOT in /usr/local for xps. Sufficient infrastructure to provision R 3.6 to build/check 1625 Bioc software packages. The image of R for building these packages consumes about 80GB so must be built on an attached volume. The whole build process requires temp space on the attached volume. At least 300GB will be required.

Made Changes the shell script that fetches data from TACC Corral Storage to Jetstream

Imported Application - BWW Project Docker and TDS

CAFE (Computational Analysis of gene Family Evolution) is an application that analyzes changes in gene family size in a way that accounts for phylogenetic history and provides a statistical foundation for evolutionary inferences. This image includes a tutorial for a full CAFE pipeline including the applications CAFE, BLAST, MCL and r8s.

Based on CentOS 6 (6.10) Development - updated from 6.9 to 6.10 Installation size ~ 4.4GB

Test image with: R 3.4.2, Advance Normalization Tools, 3D Slicer and Rstudio patched up to 12_17_2017

Centos 7 (7.8) Development GUI Installation size ~ 4.5GB

Centos 7 (7.8) Development GUI with Anaconda installed into /opt/anaconda2 Installation size ~ 9.0GB - Requires an m1.small or larger

Imported Application - Centos7 - GlobalNOC

Base CentOS 7 image for HySDS

Centos 7 with R/Rstudio/Slicer and ANTsR installed. Up to date 12_17_2017

Centos 8 (8.2) Development GUI Installation size ~ 5.0G

Imported Application - Chemcompute Master Node

Imported Application - Chemcompute Slave

Current Iteration of JBrowse image end of april 2019