| Authors: Ning Leng, Jeea Choi, Christina Shafer, Christina Kendziorski
Requirements: R, R-package EBSeq For more details, see EBSeq bioconductor webpage http://bioconductor.org/packages/release/bioc/html/EBSeq.html Common questions https://github.com/lengning/EBSeq Galaxy user manual: https://github.com/lengning/EBSeq/blob/master/Galaxy/EBSeq.Galaxy.Manual.pdf Click this link to download the pdf: https://github.com/lengning/EBSeq/raw/master/Galaxy/EBSeq.Galaxy.Manual.pdf References: Leng, N., J.A. Dawson, J.A. Thomson, V. Ruotti, A.I. Rissman, B.M.G. Smits, J.D. Haag, M.N. Gould, R.M. Stewart, and C. Kendziorski. EBSeq: An empirical Bayes hierarchical model for inference in RNA-seq experiments, Bioinformatics, 2013. |
hg clone https://toolshed.g2.bx.psu.edu/repos/ning/ebseq
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| Runs EBSeq to find DE genes across multiple (more than two) conditions | 1.0.0 | any | |
| Get Ig vector from gene-isoform mapping for isoform level DE analysis | 1.0.0 | any | |
| Choose patterns of interest in a multiple condition design | 1.0.0 | any | |
| Runs EBSeq to find DE genes across two conditions | 1.0.0 | any | |
| Calculate normalization factors and get the normalized expression matrix | 1.0.0 | any | |
| Runs EBSeq to find DE isoforms across two conditions | 1.0.0 | any | |
| Runs EBSeq to find DE isoforms across multiple (more than two) conditions | 1.0.0 | any | |
| Get all possible patterns in a multiple condition design | 1.0.0 | any | |
| Runs EBSeq to find DE genes across multiple (more than two) conditions | 1.0.0 | any | |
| Get Ig vector from gene-isoform mapping for isoform level DE analysis | 1.0.0 | any | |
| Choose patterns of interest in a multiple condition design | 1.0.0 | any | |
| Runs EBSeq to find DE genes across two conditions | 1.0.0 | any | |
| Calculate normalization factors and get the normalized expression matrix | 1.0.0 | any | |
| Runs EBSeq to find DE isoforms across two conditions | 1.0.0 | any | |
| Runs EBSeq to find DE isoforms across multiple (more than two) conditions | 1.0.0 | any | |
| Get all possible patterns in a multiple condition design | 1.0.0 | any | |
| Runs EBSeq to find DE genes across multiple (more than two) conditions | 1.0.0 | any | |
| Get Ig vector from gene-isoform mapping for isoform level DE analysis | 1.0.0 | any | |
| Choose patterns of interest in a multiple condition design | 1.0.0 | any | |
| Runs EBSeq to find DE genes across two conditions | 1.0.0 | any | |
| Calculate normalization factors and get the normalized expression matrix | 1.0.0 | any | |
| Runs EBSeq to find DE isoforms across two conditions | 1.0.0 | any | |
| Runs EBSeq to find DE isoforms across multiple (more than two) conditions | 1.0.0 | any | |
| Get all possible patterns in a multiple condition design | 1.0.0 | any | |