Dinh/Dinh 2015/NOTES/2015-11-12
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Twins WGBS data[edit]
- Mapping with BisReadMapper (BWA).
- Trimming with TrimGalore
- Trim/Map rates
Tube # | ID# | PairID | Time | Case/Control | SampleID | Sample Library ID | FastqID | Total reads sequenced | Total reads post trimming | Total bases | Total mapped bases | Map rate | Average depth of coverage | chrM CpGs %methyl | F/R correlation (minDepth=10) |
1 | 27499 | Twin 1 A | V1 | control | Twin1A_control | HL_01 | Rana_S1 | 53,939,426 | 53,938,231 | 6,867,185,230 | 361,362,875 | 5% | 0.1 | 25.2% | 0.50 |
2 | 27816 | Twin 1 B | V1 | case | Twin1B_case | HL_02 | Rana_S2 | 91,770,148 | 91,763,809 | 12,073,881,584 | 589,048,085 | 5% | 0.2 | 14.6% | 0.40 |
14 | 32466 | Twin 2 B | V1 | control | Twin2B_control | HL_14 | Rana_S12 | 152,944,091 | 152,939,179 | 22,601,803,849 | 14,175,687,385 | 63% | 4.7 | 1.4% | 0.87 |
3 | 28593 | Twin 3 A | V1 | control | Twin3A_control | HL_03 | Rana_S3 | 91,210,871 | 91,208,575 | 12,299,618,556 | 642,298,498 | 5% | 0.2 | 14.6% | 0.45 |
4 | 29006 | Twin 3 B | V1 | case | Twin3B_case | HL_04 | Rana_S4 | 88,162,604 | 88,159,811 | 13,014,989,558 | 7,465,110,537 | 57% | 2.5 | 2.2% | 0.79 |
15 | 33643 | Twin 4 A | V1 | case | Twin4A_case | HL_15 | Rana_S13 | 143,141,414 | 143,137,572 | 21,181,316,146 | 14,792,129,556 | 70% | 4.9 | 1.7% | 0.89 |
16 | 33644 | Twin 4 B | V1 | control | Twin4B_control | HL_16 | Rana_S14 | 127,423,984 | 127,419,413 | 18,842,435,056 | 11,803,330,701 | 63% | 3.9 | 1.7% | 0.84 |
5 | 36452 | Twin 5 A | V1 | case | Twin5A_case | HL_05 | Rana_S5 | 142,256,271 | 142,252,105 | 21,035,952,187 | 13,667,580,670 | 65% | 4.6 | 2.3% | 0.78 |
6 | 36453 | Twin 5 B | V1 | control | Twin5B_control | HL_06 | Rana_S6 | 169,862,333 | 169,858,233 | 25,098,872,959 | 16,645,449,349 | 66% | 5.5 | 1.4% | 0.83 |
7 | 30603 | Twin 6 A | V1 | control | Twin6A_control | HL_07 | Rana_S7 | 115,052,316 | 115,048,590 | 17,014,477,565 | 11,977,062,753 | 70% | 4 | 1.6% | 0.85 |
8 | 30604 | Twin 6 B | V1 | case | Twin6B_case | HL_08 | Rana_S8 | 113,207,091 | 113,203,646 | 16,742,846,029 | 10,764,958,456 | 64% | 3.6 | 1.9% | 0.84 |
9 | 38951 | Twin 7 A | V1 | control | Twin7A_control | HL_09 | Rana_S9 | 95,590,286 | 95,587,222 | 14,119,084,739 | 8,625,934,307 | 61% | 2.9 | 2.1% | 0.83 |
10 | 38952 | Twin 7 B | V1 | case | Twin7B_case | HL_10 | Rana_S10 | 143,714,976 | 143,710,458 | 21,254,579,865 | 13,576,247,502 | 64% | 4.5 | 2.2% | 0.83 |
11 | 39427 | Twin 8 A | V1 | case | Twin8A_case | HL_11 | Rana_S11 | 123,892,010 | 123,888,682 | 18,281,187,575 | 10,672,946,898 | 58% | 3.6 | 2.2% | 0.87 |
12 | 39428 | Twin 8 B | V1 | control | Twin8B_control | HL_17 | Rana_S15 | 121,479,698 | 121,477,017 | 17,951,004,283 | 11,345,912,741 | 63% | 3.8 | 1.5% | 0.88 |