User:Lindenb/Notebook/UMR915/20101014: Difference between revisions
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From http://biostar.stackexchange.com/questions/2903 , Brad Chapmans suggest http://bioinformatics.bc.edu/marthlab/GigaBayes as a SNP caller. | From http://biostar.stackexchange.com/questions/2903 , Brad Chapmans suggest http://bioinformatics.bc.edu/marthlab/GigaBayes as a SNP caller. | ||
==Belgium== | |||
Downloaded http://www.clcbio.com/index.php?id=1292 to get visible data for individual 1 | |||
===Coverages=== | |||
'''Individual 1:''' | |||
Mean coverage 18,93 | |||
Total bases in targeted regions 3.456.979 | |||
1x 90,60% | |||
5x 68,09% | |||
10x 49,68% | |||
20x 33,75% | |||
40x 16,28% | |||
80x 0,76% | |||
100x 0,07% | |||
'''Individual 2:''' | |||
primary_target_region coverage report.pdf | |||
Mean coverage 34,81 | |||
Total bases in targeted regions 3.456.979 | |||
1x 96,76% | |||
5x 88,27% | |||
10x 73,18% | |||
20x 51,10% | |||
40x 33,79% | |||
80x 12,34% | |||
100x 4,28% | |||
capture_target coverage report.pdf | |||
Mean coverage 27,67 | |||
Total bases in targeted regions 5.085.943 | |||
1x 92,46% | |||
5x 79,76% | |||
10x 63,03% | |||
20x 41,00% | |||
40x 24,52% | |||
80x 8,54% | |||
100x 2,95% |
Latest revision as of 07:37, 14 October 2010
- presentation Quentin
- improving sigframe
- asked snapshot from Integragen/Melanie
From http://biostar.stackexchange.com/questions/2903 , Brad Chapmans suggest http://bioinformatics.bc.edu/marthlab/GigaBayes as a SNP caller.
Belgium
Downloaded http://www.clcbio.com/index.php?id=1292 to get visible data for individual 1
Coverages
Individual 1:
Mean coverage 18,93 Total bases in targeted regions 3.456.979 1x 90,60% 5x 68,09% 10x 49,68% 20x 33,75% 40x 16,28% 80x 0,76% 100x 0,07%
Individual 2:
primary_target_region coverage report.pdf
Mean coverage 34,81 Total bases in targeted regions 3.456.979 1x 96,76% 5x 88,27% 10x 73,18% 20x 51,10% 40x 33,79% 80x 12,34% 100x 4,28%
capture_target coverage report.pdf
Mean coverage 27,67 Total bases in targeted regions 5.085.943 1x 92,46% 5x 79,76% 10x 63,03% 20x 41,00% 40x 24,52% 80x 8,54% 100x 2,95%