HiMMe v1.0
Description
Description
HiMMe is a computational biology tool that applies hidden Markov models (HMM) to assess NGS data reliability and is able to detect errors and repair them.
Installation
1. Clone the repository:
git clone git@github.com:jordiabante/HiMMe.git
2. Add the bin folder in the repository to your path variable by adding the following line to the `.bashrc` (`.bash_profile` in Mac) file:
export PATH="path/to/bin:$PATH"
3. If the machine running the code is Machintosh install coreutils (sudo port install coreutils) as well as: sed, gzip, grep, getopt, mysql, openssl, readline, boost, zlib. Add the following line to the `.bashrc` (`.bash_profile` in Mac) file:
export PATH="/opt/local/bin:$PATH"
export PATH="/opt/local/libexec/gnubin:$PATH"
Dependancies
1. bash{pv}
2. bash{xargs}
3. perl{Algorithm::Combinatorics}
Content
1. Every folder (`script_name`) will contain the following files and directories:
1. `sript_name.sh`: bash script
2. `main/`
* `main.sh`: bash script to try the command with toy example.
* Files required for the toy example.
Files
HiMMe-v1.0.zip
Files
(418.1 kB)
Name | Size | Download all |
---|---|---|
md5:c690da9e69d404a496e75e4edbaf9cbd
|
418.1 kB | Preview Download |
Additional details
Related works
- Is supplement to
- https://github.com/jordiabante/HiMMe/tree/v1.0 (URL)