DeLong:Scripts

Perl Scripts
gb_feature_fasta_list Input: a Genbank file. Output: a multi-fasta file of ORFs. This script requires BioPerl to be installed on your computer. [[Media:gb_feature_fasta_list | download]]

Sliding_fasta_modified Input: a fasta or multi-fasta file. Output: a mutli-fasta file of tiled sequences across your input region, sliding-window style. User specifies window size and step size. [[Media:Sliding_fasta_modified | download]]

Submitting fosmid sequences to Genbank [[Media:Sequin_Genbank_readme.pdf | Instructions]] for preparing your files for importing into Sequin, and a [[Media:gbk_aa_sequin.txt | script]] for preparing the annotation data.
 * If you use this, and it works as expected, or if there are problems, please shoot me an email at jmaresca (at) mit (dot) edu. Thanks.