Athurva Gore/LabNotes/2010-1-8
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PGP
- Dataset mapping table (October through now):
- HL013 to HL030
Flowcell | Lane | Reads Times 4 | Number of Reads | Mapped Reads | Mapped Downsampled Reads | Mapping Rate | % Usable Reads |
HL013 | 1 | 59491092 | 14872773 | 12555897 | 8987088 | 0.84 | 0.6 |
HL014 | 6 | 47862784 | 11965696 | 8324230 | 5959697 | 0.7 | 0.5 |
HL015 | 1 | 53717748 | 13429437 | 9839373 | 6031436 | 0.73 | 0.45 |
HL019 | 4 | 59623024 | 14905756 | 8695192 | 8691338 | 0.58 | 0.58 |
HL024 | 1 | 64242556 | 16060639 | 14817937 | 13563313 | 0.92 | 0.84 |
HL025 | 1 | 36424692 | 9106173 | 8077318 | 6247035 | 0.89 | 0.69 |
HL027 | 8 | 47824792 | 11956198 | 9269899 | 8819601 | 0.78 | 0.74 |
HL028 | 6 | 37242492 | 9310623 | 5979563 | 4630087 | 0.64 | 0.5 |
HL029 | 1 | 33484628 | 8371157 | 3396996 | 3355959 | 0.41 | 0.4 |
HL030 | 1 | 58820868 | 14705217 | 8827261 | 8492613 | 0.6 | 0.58 |
- We can use this to predict how many usable reads we have for each data set.
- Count of reads for each PGP sample:
59,491,092 ./PGP1/HL013_s_1_sequence.txt 64,242,556 ./PGP1/HL024_s_1_sequence.txt 65,626,740 ./PGP1/HL024_s_2_sequence.txt 55,444,064 ./PGP1/HL024_s_3_sequence.txt 49,822,184 ./PGP1/HL024_s_4_sequence.txt 55,110,136 ./PGP2/HL013_s_2_sequence.txt 36,424,692 ./PGP3/HL025_s_1_sequence.txt 42,146,708 ./PGP3/HL013_s_3_sequence.txt 33,484,628 ./PGP4/HL029_s_1_sequence.txt 59,623,024 ./PGP4/HL019_s_4_sequence.txt 62,981,124 ./PGP4/HL019_s_5_sequence.txt 40,698,108 ./PGP5/HL025_s_2_sequence.txt 33,783,896 ./PGP5/HL013_s_4_sequence.txt 68,026,460 ./PGP6/HL019_s_7_sequence.txt 45,199,448 ./PGP6/HL029_s_2_sequence.txt 64,943,636 ./PGP6/HL019_s_6_sequence.txt 66,614,576 ./PGP7/HL025_s_3_sequence.txt 47,862,784 ./PGP7/HL014_s_6_sequence.txt 23,996,492 ./PGP8/HL028_s_8_sequence.txt 57,803,860 ./PGP8/HL014_s_7_sequence.txt 47,824,792 ./PGP8/HL027_s_8_sequence.txt 53,717,748 ./PGP8/HL015_s_1_sequence.txt 57,942,248 ./PGP8/AL006_s_5_sequence.txt 37,242,492 ./PGP8/HL028_s_6_sequence.txt 44,897,076 ./PGP8/HL028_s_7_sequence.txt 55,913,896 ./PGP8/HL015_s_2_sequence.txt 55,743,640 ./PGP8/HL015_s_3_sequence.txt 29,865,916 ./PGP8/HL024_s_6_sequence.txt 49,785,660 ./PGP9/HL014_s_8_sequence.txt 41,364,608 ./PGP9/AL006_s_6_sequence.txt 42,291,296 ./PGP9/HL029_s_3_sequence.txt 54,768,996 ./PGP9/HL015_s_4_sequence.txt 51,651,888 ./PGP9/HL015_s_5_sequence.txt 51,295,068 ./PGP9/HL015_s_6_sequence.txt 58,820,868 ./PGP9/HL030_s_1_sequence.txt 59,802,364 ./PGP9/HL030_s_2_sequence.txt 59,328,716 ./PGP9/HL030_s_3_sequence.txt 38,310,312 ./PGP10/HL029_s_4_sequence.txt 66,123,176 ./PGP10/HL019_s_8_sequence.txt