Dinh/NOTES/2010-8-2
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BC Data[edit]
RUN | Data file | Total Reads | Reads Mapped | %Mapped |
100707_VCU.s6 – B11 | 05359A17-2.txt.fwd.soap.out | 26397645 | 9449382 | 73.30% |
05359A17-2.txt.rev.soap.out | 26397645 | 9899692 | ||
100707_VCU.s7 – B12 | 05359B09-2.txt.fwd.soap.out | 22561783 | 7448390 | 67.46% |
05359B09-2.txt.rev.soap.out | 22561783 | 7771943 | ||
100707_VCU.s8 – B13 | 07292A17-2.txt.fwd.soap.out | 21651217 | 7316786 | 69.74% |
07292A17-2.txt.rev.soap.out | 21651217 | 7782123 | ||
100707_VCU.s5 – B28 | 13066B09-2.txt.fwd.soap.out | 5878199 | 2266706 | 73.64% |
13066B09-2.txt.rev.soap.out | 5878199 | 2061829 | ||
HL066.s2 - B10 | 05215B09-3.txt.fwd.soap.out | 18662642 | 7877191 | 78.75% |
05215B09-3.txt.rev.soap.out | 18662642 | 6819577 |
sample | Total CpGs >10 | Average Read depth |
05359A17-2 | 122417 | 43.5217085862258 |
05359B09-2 | 104734 | 38.9330876315237 |
07292A17-2 | 112793 | 39.872039931556 |
13066B09-2 | 45511 | 20.0854958141988 |
05215B09-2 | 98136 | 34.386565582457 |
File:Hcorcluster-4 bc hc matrix.png
5_bc_matrix.txt[edit]
- Combine 13066B09 and 12066B09-2
- Combine 05215B09 and 05215B09-2
- Replace 07292A17, 05359B09, and 05349A17 with new sequence data (version -2).
File:Hcorcluster-5 bc hc matrix.png
Data Summary[edit]
Sample | CpG with >=10 reads depth | Average reads depth |
01192B09 | 118833 | 57 |
01230B09 | 105296 | 61 |
01373A17 | 140926 | 56 |
01373B09 | 103324 | 35 |
01436B09 | 180997 | 100 |
01523B09 | 169311 | 113 |
03170B09 | 129564 | 140 |
03259B09 | 111084 | 54 |
05192A18 | 93893 | 54 |
05192B09 | 86800 | 48 |
05215A18 | 83654 | 38 |
05215B09 | 106225 | 48 |
05359A17 | 122417 | 44 |
05359B09 | 104734 | 39 |
07292A17 | 112793 | 40 |
07292B09 | 99666 | 37 |
09075B09 | 131702 | 115 |
09092B09 | 80474 | 60 |
09123A17 | 93156 | 83 |
09123B09 | 102562 | 73 |
09206B09 | 101448 | 63 |
09265B09 | 112117 | 75 |
09351A17 | 106208 | 74 |
09351B09 | 95911 | 68 |
09491A17 | 102754 | 77 |
09491B09 | 97963 | 85 |
11306A18 | 99406 | 89 |
11306B09 | 97324 | 88 |
13066A17 | 101925 | 90 |
13066B09 | 64148 | 41 |