Bowtie Issues
I want to use BOWTIE for alligning reads in a DNA sequence database. Can anybody help me,
what formats it accepts for:
1) DNA sequence database.
2) Database which contains 35 bps query reads.
And I want to find allignments allowing 2 mismatches and want to get report in my file system (not in display). Can anybody help me in what allignment mode or command I have to run.
Sorry, I am new in bioinformatics, so can't able to get much technical term.
Thanks in advance.
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Istvan Albert
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Namibia •
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Namibia •
1 answer
Work through the Bowtie tutorial below. All the data are included in the source distribution.
http://bowtie-bio.sourceforge.net/tutorial.shtml
then move onto the manual:
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Though I have no doubt that you will get your task accomplished, you should find a local bioinformatics person with NGS experience to work through your first set of data with you.