Hi,
 
I would like to know if there is any bioconductor (or other) tool that is able to retrieve a batch of sequences from a fasta file, given the desired genomic coordinates.
 
Desired genomic coordinates: 
chr1 1 5
chr2 8 13
 
Example of a fasta input file:
>pig_chr1
acacactagagata
>pig_chr2
gagagagcgcgcatgtgt
 
Example of a fasta output file:
>pig_chr1_start1_end5
 acaca
>pig_chr2_start8_end13
cgcgca
 
 
 
 

Med venlig hilsen / Regards

João Fadista
Ph.d. studerende / Ph.d. student


 	
 	 AARHUS UNIVERSITET / UNIVERSITY OF AARHUS	
Det Jordbrugsvidenskabelige Fakultet / Faculty of Agricultural Sciences	
Inst. for Genetik og Bioteknologi / Dept. of Genetics and Biotechnology	
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DK-8830 Tjele	
 	
Tel:	 +45 8999 1900	
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E-mail:	 Joao.Fadista@agrsci.dk <mailto:Joao.Fadista@agrsci.dk> 	
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