This directory contains the results for the project "PacBio". The top-level directory was created on Sat Sep 20 16:39:16 BST 2014.
To run this analysis, you will need the following software packages:
- R (version >= 3.1.0).
- knitr (an R package, can be installed from within R by typing
install.packages('knitr')).
The latest results can be regenerated by typing the following command at the console:
$ ./go ID=<NEW ID> DRY_RUN=0
This will regenerate all results and place them in the results/<NEW ID> directory.
The following is a description of the various files and directories found within this project.
| File | Description |
|---|---|
go |
High-level script that will reproduce latest results from the raw data. |
bin/ |
Contains additional programs necessary for analyzing the data. |
data/ |
Raw data files (or links to those files if they come from different projects). |
lists/ |
Text lists used during the processing (e.g. file lists, gene lists, etc.). |
results/ |
The analysis product for the raw data. Many runs may exist in this directory. |
reports/ |
Analyses on various results sets. |
resources/ |
Files that may be useful during analysis (e.g. gene models, sample metadata, etc.). |
scratch/ |
A space to keep temporary files that do not have a critical role in the analysis. Safe to discard. |
scripts/ |
Code to help process data at various stages of the analysis. |
Please contact Kiran V Garimella ([email protected]) with any questions, comments, or concerns.
The results herein represent the author's commitment to reproducible research. It is the intention that every part of this analysis - every number, every table, every figure - can be reproduced by another investigator with little-to-no effort. If you find an irreproducible element, please contact the author immediately to inform them of the issue.