hj1994412/cpc2

Verbatim Copy of CPC 2.0

• 2017-03-6 21:00, Yu-jian Kang

Here is a temporary package of CPC2.

1. Pre-requisite:

a. Biopython package: a local version could be downloaded from http://biopython.org/wiki/Download

2. Install

a. Unpack the tarball:

tom@linux$ gzip -dc CPC2-beta.tar.gz | tar xf -

b. Build third-part packages:

tom@linux$ cd CPC2-beta tom@linux$ export CPC_HOME="$PWD" tom@linux$ cd libs/libsvm tom@linux$ gzip -dc libsvm-3.18.tar.gz | tar xf - tom@linux$ cd libsvm-3.18 tom@linux$ make clean && make

3. Run the predict

tom@linux$ cd $CPC_HOME tom@linux$ bin/CPC2.py -i (input_seq) -o (result_in_table)

example: tom@linux$ bin/CPC2.py -i data/example.fa -o example_output

4. Output result

Result in table format (delimited by tab): #ID peptide_length Fickett_score isoelectric_point ORF_integrity coding_probability coding_label

See the website for tutorial and more details. (http://cpc2.cbi.pku.edu.cn)

This is a beta version of CPC2, if have any questions please report to us.

Contact: [email protected]