Mercurial > repos > yating-l > gbtofasta
diff README.rst @ 0:9573618e2afe draft
planemo upload commit f3fb68f4faf6766eef195b8b36157035ab95e7b1
author | yating-l |
---|---|
date | Wed, 12 Apr 2017 17:43:55 -0400 |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/README.rst Wed Apr 12 17:43:55 2017 -0400 @@ -0,0 +1,33 @@ +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).