Ylaine/2009-8-18: Difference between revisions
Jump to navigation
Jump to search
>Ylaine |
>Ylaine |
||
Line 3: | Line 3: | ||
../Scripts/snpTargeted.pl orig.snp>snp.targeted& | ../Scripts/snpTargeted.pl orig.snp>snp.targeted& | ||
* Got 17557/20761 or '''84.57%''' | * Got 17557/20761 or '''84.57%''' | ||
* Follow-up questions: | |||
** Is there a bug in calculateSNPeff.pl? | |||
** What proportion of targeted SNPs are matches? | |||
** How many SNPs are present in target arms? | |||
** Are (heterozygous) mismatches more likely to occur in non-targeted regions? | |||
** What is the median coverage of targeted regions vs. non-targeted regions? |
Revision as of 18:48, 18 August 2009
Finding Targeted SNPs
- New script, snpTargeted.pl adapted from snpInRange.pl
../Scripts/snpTargeted.pl orig.snp>snp.targeted&
- Got 17557/20761 or 84.57%
- Follow-up questions:
- Is there a bug in calculateSNPeff.pl?
- What proportion of targeted SNPs are matches?
- How many SNPs are present in target arms?
- Are (heterozygous) mismatches more likely to occur in non-targeted regions?
- What is the median coverage of targeted regions vs. non-targeted regions?