Cristian,
You can use your FASTA file with the NGS mappers (BWA, Bowtie, Lastz). Galaxy allows you to upload a gzipped file into your history, which it extracts after you upload it. Note that the file should be a single FASTA file containing all chromosomes/scaffolds/etc., each marked with a single header line. (Also, the file can only be gzipped (not tarred and gzipped)--it looks like yours is fine.) Then, when you are going to do the mapping, select the Use one from your history option instead of using one of the built-in indexes. Galaxy will create the indexes that the mapper needs from your supplied FASTA file before it does the mapping.
Let us know if you need any further assistance.
Regards, Kelly
On Sep 18, 2010, at 3:43 PM, Cristian Rojas wrote:
Hi evrybody, I would like to align some sequences to maize genome. How I can import it to galaxy?. My sequences are already loaded and I have the "ZmB73_AGPv1_genome.fasta.gz" file (not loaded yet), but I'm not sure if is this that I have to do. Any suggest are wellcome Best regards, Cristian
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