FETx
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FETx is a plugin for GFF-Ex. FETx translates coordinates of user specified feature into sequences using GFF-Ex.


System Requirements
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1. OS Platform:- Linux
2. Perl 4.0, or above
3. GFF-Ex_v2.1


Required Input Files
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1. Gff file (.gff)
2. Corresponding Genome Sequence file in fasta format. (.fa, .fasta, .fna, etc.)
3. feature of interest specified within gff file.


Inputs Example Files
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1. Gff File:	/FETx/examples/example.gff
2. Genome:	/FETx/examples/sequence.fasta


Output Files											Preffix(plugin name)_Suffix(Input gfffile/sequencefile)
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1. Desired Sequences								- OUTPUTFILE:	fetx_(feature-name)_(input "genome" filename)


Installation
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1. Download FETx.tar.gz
2. sudo -s
3. gunzip FETx.tar.gz
4. tar -vxf FETx.tar
5. cd FETx
6. ./install.sh						    				-------  configures the file system and install the plugin


Usage
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1. Using terminal, move to the working directory containing your input files.
2. run FETx using command " gffex -pl [fetx] -in [gff-file] -db [seqeuncefile] -ft featurename"		gffex -pl fetx -in input -db seqeunce.fasta -ft gene


Acknowledgements
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1. Dr. Dinesh Gupta
2. Mr. Abhinav Kaushik


DeveloperZ Information
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Achal Rastogi
(Dr. Dinesh Gutpa Group)
Research Fellow
Bioinformatics Facility
Structural & Computational Biology Laboratory
International Center for Genetic Engineering And Biotechnology
Aruna Asaf Ali Marg, New Delhi 110067 India
Email: achal@icgeb.res.in


NOTES
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1. Being in the directory containing input files is a prerequisite for running GFF-Ex, to avoid output errors.
2. Take care of the inputs, wrong inputs may fetch you with wrong results.
3. Remember to be super-user($ su) while installing. unistalling or executing GFF-Ex.
4. Scripts mounted and tested on Red-Hat EL 5.1.