ABySS 2.2.3 Bloom filter false positive rate

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Peiwen Li

Jan 20, 2020, 8:05:12 PM1/20/20
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Hi ABySS group!
I ran abyss-pe with Bloom filter which reported a false positive rate (FPR) in the log file. Below is part of the log file:

Loaded 478640000 reads into Bloom filter
Loaded 478650000 reads into Bloom filter
Loaded 478658235 reads from `/home/peiwen/WGS_whitefish_2018/WF_1181_S2_L004_R2_001.fastq.gz` into Bloom filter
Bloom filter FPR: 3.94%
Counting Bloom filter stats:
#counters               = 190887435392
#size (B)               = 190887435392
threshold               = 2
popcount                = 13530549696
FPR                     = 0.00252%

I wonder which FPR is the one I should keep track of and how the two FPR are different?

Thank you!

Johnathan Wong

Feb 24, 2020, 2:26:14 PM2/24/20
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