Mercurial > repos > yating-l > gbtofasta
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| author | yating-l |
|---|---|
| date | Mon, 05 Jun 2017 12:50:14 -0400 |
| parents | 9573618e2afe |
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gbToFasta ========================================================== Galaxy wrapper for UCSC tools gbToFasta and raToTab. Convert GenBank records to fasta and create table with coding regions information for each mRNA record. gbToFasta --------- gbToFaRa - Convert GenBank flat format file to an fa file containing the sequence data, an ra file containing other relevant info and a ta file containing summary statistics. usage: gbToFaRa filterFile faFile raFile taFile genBankFile(s) where filterFile is definition of which records and fields use /dev/null if you want no filtering. $ gbToFaRa /dev/null gbfile.fa gbfile.ra gbfile.ta gbfile raToTab -------- raToTab - Create table with coding regions information for each mRNA record usage: raToTab -cols=acc,cds gbfile.ra gbfile.cds Source code: ============ http://hgdownload.cse.ucsc.edu/admin/exe/ Licence ------- Please note that commercial download and installation of the Blat and In-Silico PCR software may be licensed through Kent Informatics (http://www.kentinformatics.com).