Download ZOOM Studio Manual 1.1 - Bioinformatics Solutions Inc.

Usage examples for ABI SOLiD data
1. ZOOM –i Yoruban.15M.csfasta –g all.lst -mm 2
ZOOM maps the color space reads in Yoruban.15M.csfasta to the human
chromosomes listed in the file all.lst, allowing two errors (either two genome
differences and no sequencing errors on color space read, or one genome
difference and one color space sequencing error, or no genomic differences
and two color space sequencing errors).
2. ZOOM –i A.15M.csfasta –g all.lst –mm 4 –de
ZOOM maps the color space reads in A.15M.csfasta to the human
chromosomes listed in the file all.lst, allowing four errors.
3. ZOOM –if Yoruban_F3.csfasta –ir Yoruban_R3.csfasta –pe –pemin 1495 –
pemax 2027 –g all.lst –mm 2 –dcs
ZOOM maps the color spaced paired-end reads in Yoruban_F3.csfasta and
Yoruban_R3.csfasta to the human chromosomes listed in all.lst, allowing two
errors. Two paired-end reads are mapped from 1495bp to 2027bp.