bioinformagical
Once there was Java. Then there was Perl. Then there was python. But mostly there are just poorly written hacks to get the answer needed.
UNC CharlotteNorth Carolina
Pinned Repositories
BlueberryAndGage
Pathway level analysis is often done at a gene level perspective. Here, we utilize the GAGE pathway analysis tool to explore the most active pathways in blueberry at different stages of berry development. Here are scripts involved in Gage / Pathview in R. As well as command line scripts for various stages. The code is designed to run on our local cluster and will need heavy tweaking to be of utility elsewhere.
Cluster-Scripts
From HPC
DOI_request_quickstart
DP_GP_cluster
Clustering gene expression time series data using an infinite Gaussian process mixture model. Goal to implement this on time series RNA-Seq data.
EchinoSpecies
medium
pathview
reproducibility-tutorial
Cyverse tutorial of assembling FP
scripts-cluster
All of the cluster scripts since 2011
SweetPotatoRNA-Seq
A small collection of scripts for various stages of Sweet potato RNA-Seq analysis
bioinformagical's Repositories
bioinformagical/Cluster-Scripts
From HPC
bioinformagical/BlueberryAndGage
Pathway level analysis is often done at a gene level perspective. Here, we utilize the GAGE pathway analysis tool to explore the most active pathways in blueberry at different stages of berry development. Here are scripts involved in Gage / Pathview in R. As well as command line scripts for various stages. The code is designed to run on our local cluster and will need heavy tweaking to be of utility elsewhere.
bioinformagical/DOI_request_quickstart
bioinformagical/DP_GP_cluster
Clustering gene expression time series data using an infinite Gaussian process mixture model. Goal to implement this on time series RNA-Seq data.
bioinformagical/EchinoSpecies
bioinformagical/medium
bioinformagical/pathview
bioinformagical/reproducibility-tutorial
Cyverse tutorial of assembling FP
bioinformagical/scripts-cluster
All of the cluster scripts since 2011
bioinformagical/SweetPotatoRNA-Seq
A small collection of scripts for various stages of Sweet potato RNA-Seq analysis