Home / DREEP / 0.7
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readme.txt 2012-09-17 866 Bytes
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Dreep_result_filter_indel.pl 2012-09-17 4.1 kB
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error_profile_emp.pl 2012-09-17 6.9 kB
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error_profile_pois.pl 2012-09-17 5.0 kB
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filter_and_summary.pl 2012-09-17 9.3 kB
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Pois_emp_overlap.pl 2012-09-17 1.4 kB
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sam_to_pileup.py 2012-09-17 8.0 kB
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Dreep_result_filter.pl 2012-09-17 4.4 kB
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Dreep_poisson.pl 2012-09-17 9.4 kB
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Dreep_fisher.pl 2012-09-17 8.6 kB
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Dreep_emp.pl 2012-09-17 5.9 kB
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Totals: 11 Items   63.9 kB 0 
v0.7
The default value for -r is set to be 0 (deactivated), we found the distribion of reads on different strands is not as random as people thought;
A bug in filter_and_summary.pl is now fixed, in the previous version, when mismatch number is greater than 9, it was recognized as 0, please note that when you run BWA in pair-end mode, the mismatch number could be much greater than what you set.
Distint reads number for the major allele has be to greater than 10 on each strands.

v0.6
A range could be given to filter_and_summary.pl (-a) in the format of ChrX:Y-X, e.g., MT:100-1500, all the following analysis will be restricted to this specific region. 
A bug has been fixed in Dreep_poisson.pl, Dreep_fisher.pl, if there is no reads in one direction (normally at the two ends of the reference sequence), a quality socre of "0" will be given instead of nothing.
Source: readme.txt, updated 2012-09-17